Matching samples

GSE24287 · Differential early pathogenic changes in human ileal gene expression in Crohn's disease and ulcerative colitis

Download matching samples CSV
Selected cohort requirements

Samples meeting selected requirements: 0 cases / 0 controls

74 case / 25 control samples elsewhere in the study have incomplete or conflicting evidence; they are not included above

Patient pairs verified in indexed sample metadata: 0

A case/control comparison meeting these requirements is not confirmed.

Counts describe samples, not independent patients. Pair verification uses explicit subject identifiers in indexed sample metadata. Zero verified pairs does not establish that the study is unpaired; reported matched-normal design alone is insufficient.

The CSV contains only the confirmed cases and controls below. Excluded and uncertain samples are shown for review and are not exported.

These are sample eligibility decisions from the current indexed metadata. Study-level search filters and minimum sample counts do not establish expression quality or analysis readiness.

Included samples (0)

No samples meet the selected requirements. The CSV contains its column headers only.

Uncertain samples (99)

These samples need more evidence before they can be counted. This includes samples without a confirmed case/control role.

GSM597230

Uncertain

UC7 T110-S-NI vs. N-17 T26-S-NI

Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

Requirements and decision evidence
  • organism: Homo sapiens — Insufficient evidence
    • The required value is not reported.
    • assay type: bulk RNA-seq — Insufficient evidence
      • The required value is not reported.
      • specimen category: Tissue or biopsy — Insufficient evidence
        • The required value is not reported.
        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
          • Supported by the indexed evidence.
          • specimen category excludes: Biofluid — Meets requirement
            • Supported by the indexed evidence.
            Source metadata
            Source name
            disease-unaffected ileum from ulcerative colitis patient
            Characteristics
            tissue: proximal ileal margin; disease phenotype: ulcerative colitis
            Description
            Not reported
            Indexed organism evidence
            INFERRED · PARENT_INHERITED: Not reported
            Indexed assay evidence
            INFERRED · PARENT_INHERITED: Not reported
            Source
            GEO
            Original indexed metadata
            sample_accession: GSM597230
            sample_title: UC7 T110-S-NI vs. N-17 T26-S-NI
            source_name: disease-unaffected ileum from ulcerative colitis patient
            characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

            GSM597231

            Uncertain

            UC59 T56-S-NI vs. N-17 T26-S-NI

            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

            Requirements and decision evidence
            • organism: Homo sapiens — Insufficient evidence
              • The required value is not reported.
              • assay type: bulk RNA-seq — Insufficient evidence
                • The required value is not reported.
                • specimen category: Tissue or biopsy — Insufficient evidence
                  • The required value is not reported.
                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                    • Supported by the indexed evidence.
                    • specimen category excludes: Biofluid — Meets requirement
                      • Supported by the indexed evidence.
                      Source metadata
                      Source name
                      disease-unaffected ileum from ulcerative colitis patient
                      Characteristics
                      tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                      Description
                      Not reported
                      Indexed organism evidence
                      INFERRED · PARENT_INHERITED: Not reported
                      Indexed assay evidence
                      INFERRED · PARENT_INHERITED: Not reported
                      Source
                      GEO
                      Original indexed metadata
                      sample_accession: GSM597231
                      sample_title: UC59 T56-S-NI vs. N-17 T26-S-NI
                      source_name: disease-unaffected ileum from ulcerative colitis patient
                      characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                      GSM597232

                      Uncertain

                      UC89 T74-S-NI vs. N-17 T26-S-NI

                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                      Requirements and decision evidence
                      • organism: Homo sapiens — Insufficient evidence
                        • The required value is not reported.
                        • assay type: bulk RNA-seq — Insufficient evidence
                          • The required value is not reported.
                          • specimen category: Tissue or biopsy — Insufficient evidence
                            • The required value is not reported.
                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                              • Supported by the indexed evidence.
                              • specimen category excludes: Biofluid — Meets requirement
                                • Supported by the indexed evidence.
                                Source metadata
                                Source name
                                disease-unaffected ileum from ulcerative colitis patient
                                Characteristics
                                tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                Description
                                Not reported
                                Indexed organism evidence
                                INFERRED · PARENT_INHERITED: Not reported
                                Indexed assay evidence
                                INFERRED · PARENT_INHERITED: Not reported
                                Source
                                GEO
                                Original indexed metadata
                                sample_accession: GSM597232
                                sample_title: UC89 T74-S-NI vs. N-17 T26-S-NI
                                source_name: disease-unaffected ileum from ulcerative colitis patient
                                characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                GSM597233

                                Uncertain

                                UC153 T119-S-NI vs. N-17 T26-S-NI

                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                Requirements and decision evidence
                                • organism: Homo sapiens — Insufficient evidence
                                  • The required value is not reported.
                                  • assay type: bulk RNA-seq — Insufficient evidence
                                    • The required value is not reported.
                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                      • The required value is not reported.
                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                        • Supported by the indexed evidence.
                                        • specimen category excludes: Biofluid — Meets requirement
                                          • Supported by the indexed evidence.
                                          Source metadata
                                          Source name
                                          disease-unaffected ileum from ulcerative colitis patient
                                          Characteristics
                                          tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                          Description
                                          Not reported
                                          Indexed organism evidence
                                          INFERRED · PARENT_INHERITED: Not reported
                                          Indexed assay evidence
                                          INFERRED · PARENT_INHERITED: Not reported
                                          Source
                                          GEO
                                          Original indexed metadata
                                          sample_accession: GSM597233
                                          sample_title: UC153 T119-S-NI vs. N-17 T26-S-NI
                                          source_name: disease-unaffected ileum from ulcerative colitis patient
                                          characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                          GSM597234

                                          Uncertain

                                          UC167 T227-S-Ni vs. N-17 T26-S-NI

                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                          Requirements and decision evidence
                                          • organism: Homo sapiens — Insufficient evidence
                                            • The required value is not reported.
                                            • assay type: bulk RNA-seq — Insufficient evidence
                                              • The required value is not reported.
                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                • The required value is not reported.
                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                  • Supported by the indexed evidence.
                                                  • specimen category excludes: Biofluid — Meets requirement
                                                    • Supported by the indexed evidence.
                                                    Source metadata
                                                    Source name
                                                    disease-unaffected ileum from ulcerative colitis patient
                                                    Characteristics
                                                    tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                    Description
                                                    Not reported
                                                    Indexed organism evidence
                                                    INFERRED · PARENT_INHERITED: Not reported
                                                    Indexed assay evidence
                                                    INFERRED · PARENT_INHERITED: Not reported
                                                    Source
                                                    GEO
                                                    Original indexed metadata
                                                    sample_accession: GSM597234
                                                    sample_title: UC167 T227-S-Ni vs. N-17 T26-S-NI
                                                    source_name: disease-unaffected ileum from ulcerative colitis patient
                                                    characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                    GSM597235

                                                    Uncertain

                                                    UC177 T221-S-NI vs. N-17 T26-S-NI

                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                    Requirements and decision evidence
                                                    • organism: Homo sapiens — Insufficient evidence
                                                      • The required value is not reported.
                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                        • The required value is not reported.
                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                          • The required value is not reported.
                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                            • Supported by the indexed evidence.
                                                            • specimen category excludes: Biofluid — Meets requirement
                                                              • Supported by the indexed evidence.
                                                              Source metadata
                                                              Source name
                                                              disease-unaffected ileum from ulcerative colitis patient
                                                              Characteristics
                                                              tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                              Description
                                                              Not reported
                                                              Indexed organism evidence
                                                              INFERRED · PARENT_INHERITED: Not reported
                                                              Indexed assay evidence
                                                              INFERRED · PARENT_INHERITED: Not reported
                                                              Source
                                                              GEO
                                                              Original indexed metadata
                                                              sample_accession: GSM597235
                                                              sample_title: UC177 T221-S-NI vs. N-17 T26-S-NI
                                                              source_name: disease-unaffected ileum from ulcerative colitis patient
                                                              characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                              GSM597236

                                                              Uncertain

                                                              UC221 T221-S-NI vs. N-17 T26-S-NI

                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                              Requirements and decision evidence
                                                              • organism: Homo sapiens — Insufficient evidence
                                                                • The required value is not reported.
                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                  • The required value is not reported.
                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                    • The required value is not reported.
                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                      • Supported by the indexed evidence.
                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                        • Supported by the indexed evidence.
                                                                        Source metadata
                                                                        Source name
                                                                        disease-unaffected ileum from ulcerative colitis patient
                                                                        Characteristics
                                                                        tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                        Description
                                                                        Not reported
                                                                        Indexed organism evidence
                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                        Indexed assay evidence
                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                        Source
                                                                        GEO
                                                                        Original indexed metadata
                                                                        sample_accession: GSM597236
                                                                        sample_title: UC221 T221-S-NI vs. N-17 T26-S-NI
                                                                        source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                        GSM597237

                                                                        Uncertain

                                                                        UC256 T245-S-II vs. N-17 T26-S-NI

                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                        Requirements and decision evidence
                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                          • The required value is not reported.
                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                            • The required value is not reported.
                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                              • The required value is not reported.
                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                • Supported by the indexed evidence.
                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                  • Supported by the indexed evidence.
                                                                                  Source metadata
                                                                                  Source name
                                                                                  disease-unaffected ileum from ulcerative colitis patient
                                                                                  Characteristics
                                                                                  tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                  Description
                                                                                  Not reported
                                                                                  Indexed organism evidence
                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                  Indexed assay evidence
                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                  Source
                                                                                  GEO
                                                                                  Original indexed metadata
                                                                                  sample_accession: GSM597237
                                                                                  sample_title: UC256 T245-S-II vs. N-17 T26-S-NI
                                                                                  source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                  GSM597238

                                                                                  Uncertain

                                                                                  UC297 T272-S-NI vs. N-17 T26-S-NI

                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                  Requirements and decision evidence
                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                    • The required value is not reported.
                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                      • The required value is not reported.
                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                        • The required value is not reported.
                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                          • Supported by the indexed evidence.
                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                            • Supported by the indexed evidence.
                                                                                            Source metadata
                                                                                            Source name
                                                                                            disease-unaffected ileum from ulcerative colitis patient
                                                                                            Characteristics
                                                                                            tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                            Description
                                                                                            Not reported
                                                                                            Indexed organism evidence
                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                            Indexed assay evidence
                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                            Source
                                                                                            GEO
                                                                                            Original indexed metadata
                                                                                            sample_accession: GSM597238
                                                                                            sample_title: UC297 T272-S-NI vs. N-17 T26-S-NI
                                                                                            source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                            GSM597239

                                                                                            Uncertain

                                                                                            UC309 T284-S-NI vs. N-17 T26-S-NI

                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                            Requirements and decision evidence
                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                              • The required value is not reported.
                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                • The required value is not reported.
                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                  • The required value is not reported.
                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                    • Supported by the indexed evidence.
                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                      • Supported by the indexed evidence.
                                                                                                      Source metadata
                                                                                                      Source name
                                                                                                      disease-unaffected ileum from ulcerative colitis patient
                                                                                                      Characteristics
                                                                                                      tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                      Description
                                                                                                      Not reported
                                                                                                      Indexed organism evidence
                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                      Indexed assay evidence
                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                      Source
                                                                                                      GEO
                                                                                                      Original indexed metadata
                                                                                                      sample_accession: GSM597239
                                                                                                      sample_title: UC309 T284-S-NI vs. N-17 T26-S-NI
                                                                                                      source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                      GSM597240

                                                                                                      Uncertain

                                                                                                      UC384 T452-S-NI vs. N-17 T26-S-NI

                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                      Requirements and decision evidence
                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                        • The required value is not reported.
                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                          • The required value is not reported.
                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                            • The required value is not reported.
                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                              • Supported by the indexed evidence.
                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                • Supported by the indexed evidence.
                                                                                                                Source metadata
                                                                                                                Source name
                                                                                                                disease-unaffected ileum from ulcerative colitis patient
                                                                                                                Characteristics
                                                                                                                tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                Description
                                                                                                                Not reported
                                                                                                                Indexed organism evidence
                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                Indexed assay evidence
                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                Source
                                                                                                                GEO
                                                                                                                Original indexed metadata
                                                                                                                sample_accession: GSM597240
                                                                                                                sample_title: UC384 T452-S-NI vs. N-17 T26-S-NI
                                                                                                                source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                GSM597241

                                                                                                                Uncertain

                                                                                                                UC385 T453-S-NI vs. N-17 T26-S-NI

                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                Requirements and decision evidence
                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                  • The required value is not reported.
                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                    • The required value is not reported.
                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                      • The required value is not reported.
                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                        • Supported by the indexed evidence.
                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                          • Supported by the indexed evidence.
                                                                                                                          Source metadata
                                                                                                                          Source name
                                                                                                                          disease-unaffected ileum from ulcerative colitis patient
                                                                                                                          Characteristics
                                                                                                                          tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                          Description
                                                                                                                          Not reported
                                                                                                                          Indexed organism evidence
                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                          Indexed assay evidence
                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                          Source
                                                                                                                          GEO
                                                                                                                          Original indexed metadata
                                                                                                                          sample_accession: GSM597241
                                                                                                                          sample_title: UC385 T453-S-NI vs. N-17 T26-S-NI
                                                                                                                          source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                          GSM597242

                                                                                                                          Uncertain

                                                                                                                          UC175 T325-S-NI vs. N-17 T26-S-NI

                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                          Requirements and decision evidence
                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                            • The required value is not reported.
                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                              • The required value is not reported.
                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                • The required value is not reported.
                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                    Source metadata
                                                                                                                                    Source name
                                                                                                                                    disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                    Characteristics
                                                                                                                                    tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                    Description
                                                                                                                                    Not reported
                                                                                                                                    Indexed organism evidence
                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                    Indexed assay evidence
                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                    Source
                                                                                                                                    GEO
                                                                                                                                    Original indexed metadata
                                                                                                                                    sample_accession: GSM597242
                                                                                                                                    sample_title: UC175 T325-S-NI vs. N-17 T26-S-NI
                                                                                                                                    source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                    GSM597243

                                                                                                                                    Uncertain

                                                                                                                                    UC335 T329-S-NI vs. N-17 T26-S-NI

                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                    Requirements and decision evidence
                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                      • The required value is not reported.
                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                        • The required value is not reported.
                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                          • The required value is not reported.
                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                              Source metadata
                                                                                                                                              Source name
                                                                                                                                              disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                              Characteristics
                                                                                                                                              tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                              Description
                                                                                                                                              Not reported
                                                                                                                                              Indexed organism evidence
                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                              Indexed assay evidence
                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                              Source
                                                                                                                                              GEO
                                                                                                                                              Original indexed metadata
                                                                                                                                              sample_accession: GSM597243
                                                                                                                                              sample_title: UC335 T329-S-NI vs. N-17 T26-S-NI
                                                                                                                                              source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                              GSM597244

                                                                                                                                              Uncertain

                                                                                                                                              UC348 T345-S-NI vs. N-17 T26-S-NI

                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                              Requirements and decision evidence
                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                • The required value is not reported.
                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                  • The required value is not reported.
                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                    • The required value is not reported.
                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                        Source metadata
                                                                                                                                                        Source name
                                                                                                                                                        disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                        Characteristics
                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                        Description
                                                                                                                                                        Not reported
                                                                                                                                                        Indexed organism evidence
                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                        Indexed assay evidence
                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                        Source
                                                                                                                                                        GEO
                                                                                                                                                        Original indexed metadata
                                                                                                                                                        sample_accession: GSM597244
                                                                                                                                                        sample_title: UC348 T345-S-NI vs. N-17 T26-S-NI
                                                                                                                                                        source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                        GSM597245

                                                                                                                                                        Uncertain

                                                                                                                                                        UC379 T442-S-NI vs. N-17 T26-S-NI

                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                          • The required value is not reported.
                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                            • The required value is not reported.
                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                              • The required value is not reported.
                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                  Source metadata
                                                                                                                                                                  Source name
                                                                                                                                                                  disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                  Characteristics
                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                  Description
                                                                                                                                                                  Not reported
                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                  Source
                                                                                                                                                                  GEO
                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                  sample_accession: GSM597245
                                                                                                                                                                  sample_title: UC379 T442-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                  source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                  GSM597246

                                                                                                                                                                  Uncertain

                                                                                                                                                                  UC199 T222-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                            Source metadata
                                                                                                                                                                            Source name
                                                                                                                                                                            disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                            Characteristics
                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                            Description
                                                                                                                                                                            Not reported
                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                            Source
                                                                                                                                                                            GEO
                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                            sample_accession: GSM597246
                                                                                                                                                                            sample_title: UC199 T222-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                            source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                            GSM597247

                                                                                                                                                                            Uncertain

                                                                                                                                                                            UC238 T297-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                      Source metadata
                                                                                                                                                                                      Source name
                                                                                                                                                                                      disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                      Characteristics
                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                      Description
                                                                                                                                                                                      Not reported
                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                      Source
                                                                                                                                                                                      GEO
                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                      sample_accession: GSM597247
                                                                                                                                                                                      sample_title: UC238 T297-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                      source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                      GSM597248

                                                                                                                                                                                      Uncertain

                                                                                                                                                                                      UC201 T285-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                Source name
                                                                                                                                                                                                disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                Description
                                                                                                                                                                                                Not reported
                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                Source
                                                                                                                                                                                                GEO
                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                sample_accession: GSM597248
                                                                                                                                                                                                sample_title: UC201 T285-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                GSM597249

                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                UC107 T294-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                          Source name
                                                                                                                                                                                                          disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                          Description
                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                          Source
                                                                                                                                                                                                          GEO
                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                          sample_accession: GSM597249
                                                                                                                                                                                                          sample_title: UC107 T294-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                          source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                          GSM597250

                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                          UC306 T288-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                    disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                    sample_accession: GSM597250
                                                                                                                                                                                                                    sample_title: UC306 T288-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                    source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                    GSM597251

                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                    UC386 T455-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                              disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                              sample_accession: GSM597251
                                                                                                                                                                                                                              sample_title: UC386 T455-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                              source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                              GSM597252

                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                              UC380 T459-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                        disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                        sample_accession: GSM597252
                                                                                                                                                                                                                                        sample_title: UC380 T459-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                                        GSM597253

                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                        UC394 T465-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                  disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                  sample_accession: GSM597253
                                                                                                                                                                                                                                                  sample_title: UC394 T465-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                                                  GSM597254

                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                  UC396 T478-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                            disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                            sample_accession: GSM597254
                                                                                                                                                                                                                                                            sample_title: UC396 T478-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                                                            GSM597255

                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                            UC165 T150-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                      disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                      sample_accession: GSM597255
                                                                                                                                                                                                                                                                      sample_title: UC165 T150-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                                                                      GSM597256

                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                      UC250 T238-S-II vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: ulcerative colitis
                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                sample_accession: GSM597256
                                                                                                                                                                                                                                                                                sample_title: UC250 T238-S-II vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from ulcerative colitis patient
                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: ulcerative colitis

                                                                                                                                                                                                                                                                                GSM597257

                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                CD-15 14881 NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                          disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                          sample_accession: GSM597257
                                                                                                                                                                                                                                                                                          sample_title: CD-15  14881 NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                          GSM597258

                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                          CD-19 14892 NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                    sample_accession: GSM597258
                                                                                                                                                                                                                                                                                                    sample_title: CD-19 14892 NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                    GSM597259

                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                    CD-22 14892 NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                              sample_accession: GSM597259
                                                                                                                                                                                                                                                                                                              sample_title: CD-22 14892 NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                              GSM597260

                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                              CD-235 T58-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597260
                                                                                                                                                                                                                                                                                                                        sample_title: CD-235 T58-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                        GSM597261

                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                        CD-256 T67-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597261
                                                                                                                                                                                                                                                                                                                                  sample_title: CD-256 T67-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                  GSM597262

                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                  CD-312 T78-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597262
                                                                                                                                                                                                                                                                                                                                            sample_title: CD-312 T78-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                            GSM597263

                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                            CD-275 T70-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597263
                                                                                                                                                                                                                                                                                                                                                      sample_title: CD-275 T70-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                      GSM597264

                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                      CD-185 T9-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597264
                                                                                                                                                                                                                                                                                                                                                                sample_title: CD-185 T9-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                GSM597265

                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                CD-493 T142-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597265
                                                                                                                                                                                                                                                                                                                                                                          sample_title: CD-493 T142-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                          GSM597266

                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                          CD-340 T108-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597266
                                                                                                                                                                                                                                                                                                                                                                                    sample_title: CD-340 T108-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                    GSM597267

                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                    CD-401 T97-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597267
                                                                                                                                                                                                                                                                                                                                                                                              sample_title: CD-401 T97-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                              GSM597268

                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                              CD-133 T5-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597268
                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: CD-133 T5-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                        GSM597269

                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                        CD-233 T95-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597269
                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: CD-233 T95-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597270

                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                  CD-382 T93-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597270
                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: CD-382 T93-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597271

                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                            CD-196 T27-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597271
                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: CD-196 T27-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597272

                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                      CD-155 T37-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597272
                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: CD-155 T37-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597273

                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                CD-124 T1-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597273
                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: CD-124 T1-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597274

                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                          CD-178 T4-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597274
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: CD-178 T4-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597275

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    CD-323 T176-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597275
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: CD-323 T176-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597276

                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                              CD-563 T191-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597276
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: CD-563 T191-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597277

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CD-557 T194-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597277
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: CD-557 T194-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597278

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CD-216 T91-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597278
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: CD-216 T91-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597279

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            CD-404 T100-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597279
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: CD-404 T100-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597280

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      CD-650 T229-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597280
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: CD-650 T229-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597281

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                CD-451 T115-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597281
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: CD-451 T115-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597282

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CD-529 T163-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597282
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: CD-529 T163-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597283

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    CD-757 T276-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597283
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: CD-757 T276-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597284

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              CD-336 T94-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597284
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: CD-336 T94-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597285

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CD-846 T358-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597285
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: CD-846 T358-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597286

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CD-918 T430-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597286
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: CD-918 T430-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597287

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            CD-884 T366-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597287
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: CD-884 T366-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597288

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      CD-714 T214-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597288
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: CD-714 T214-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597289

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                CD-710 T454-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597289
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: CD-710 T454-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597290

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CD-379 T101-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597290
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: CD-379 T101-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597291

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    CD-349 T230-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597291
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: CD-349 T230-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597292

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              CD-794 T323-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597292
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: CD-794 T323-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597293

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CD-829 T327-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597293
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: CD-829 T327-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597294

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CD-888 T370-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597294
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: CD-888 T370-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597295

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            CD-936 T471-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597295
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: CD-936 T471-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597296

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      CD-917 T425-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597296
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: CD-917 T425-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597297

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                CD-919 T432-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597297
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: CD-919 T432-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597298

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          CD-923 T439-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597298
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: CD-923 T439-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597299

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    CD-924 T450-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597299
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: CD-924 T450-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597300

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              CD-928 T458-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597300
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: CD-928 T458-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597301

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        CD-223 T489-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597301
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: CD-223 T489-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597302

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CD-957 T501-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597302
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: CD-957 T501-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597303

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            CD-939 T477-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Case marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597303
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: CD-939 T477-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from Crohn's disease patient
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: illeal Crohn's disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597304

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      N-13 T14-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597304
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: N-13 T14-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597305

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                N-19 T30-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597305
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: N-19 T30-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597306

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          N-34 T217-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597306
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: N-34 T217-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597307

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    N-15 T23-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597307
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: N-15 T23-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597308

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              N-33 T213-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597308
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: N-33 T213-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597309

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        N-46 T216-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597309
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: N-46 T216-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597310

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  N-49 T267-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597310
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: N-49 T267-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597311

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            N-52 T271-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597311
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: N-52 T271-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597312

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      N-55 T277-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597312
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: N-55 T277-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597313

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                N-38 T240-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597313
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: N-38 T240-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597314

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          N-39 T244-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597314
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: N-39 T244-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597315

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    N-41 T246-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597315
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: N-41 T246-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597316

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              N-42 T249-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597316
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: N-42 T249-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597317

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        N-54 T274-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597317
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: N-54 T274-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597318

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  N-75 T312-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597318
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: N-75 T312-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597319

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            N-93 T349-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597319
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: N-93 T349-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597320

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      N-98 T356-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597320
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: N-98 T356-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM597321

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                N-35 T224-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_accession: GSM597321
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: N-35 T224-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM597322

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          N-37 T236-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_accession: GSM597322
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: N-37 T236-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM597323

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    N-48 T266-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_accession: GSM597323
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: N-48 T266-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM597324

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              N-50 T269-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_accession: GSM597324
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: N-50 T269-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM597325

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        N-53 T273-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_accession: GSM597325
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: N-53 T273-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM597326

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  N-69 T304-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_accession: GSM597326
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: N-69 T304-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM597327

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            N-133 T414-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_accession: GSM597327
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: N-133 T414-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM597328

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      N-73 T310-S-NI vs. N-17 T26-S-NI

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. Study role: Sample-local control marker detected.

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Description
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed organism evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Indexed assay evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                INFERRED · PARENT_INHERITED: Not reported
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GEO
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Original indexed metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_accession: GSM597328
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: N-73 T310-S-NI vs. N-17 T26-S-NI
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: disease-unaffected ileum from control
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: tissue: proximal ileal margin; disease phenotype: no inflammatory bowel disease

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Excluded samples (0)

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                No excluded samples.