Matching samples

GSE33078 · Comparison of intestinal surface CD3- refractory celiac disease type II (RCDII) cell lines with intestinal surface CD3+ cell lines of non-RCDII patients

Download matching samples CSV
Selected cohort requirements

Samples meeting selected requirements: 0 cases / 0 controls

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 (0)

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

No uncertain samples.

Excluded samples (22)

GSM819181

Excluded

P3-CD4.1

Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

Requirements and decision evidence
  • Case: organism: Homo sapiens — Insufficient evidence
    • The required value is not reported.
    • Case: assay type: bulk RNA-seq — Insufficient evidence
      • The required value is not reported.
      • Case: specimen category: Tissue or biopsy — Insufficient evidence
        • The required value is not reported.
        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
          • Supported by the indexed evidence.
          • The reported value differs from the selected requirement.
          • P3-CD4.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; ce...
        • Case: specimen category excludes: Biofluid — Meets requirement
          • Supported by the indexed evidence.
          • Control: organism: Homo sapiens — Insufficient evidence
            • The required value is not reported.
            • Control: assay type: bulk RNA-seq — Insufficient evidence
              • The required value is not reported.
              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                • The required value is not reported.
                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                  • Supported by the indexed evidence.
                  • The reported value differs from the selected requirement.
                  • P3-CD4.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; ce...
                • Control: specimen category excludes: Biofluid — Meets requirement
                  • Supported by the indexed evidence.
                  Source metadata
                  Source name
                  intestinal cells
                  Characteristics
                  disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; cell line/clone: clone; tissue: duodenum; gender: M
                  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: GSM819181
                  sample_title: P3-CD4.1
                  source_name: intestinal cells
                  characteristics: disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; cell line/clone: clone; tissue: duodenum; gender: M

                  GSM819182

                  Excluded

                  P3-CD4.2

                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                  Requirements and decision evidence
                  • Case: organism: Homo sapiens — Insufficient evidence
                    • The required value is not reported.
                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                      • The required value is not reported.
                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                        • The required value is not reported.
                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                          • Supported by the indexed evidence.
                          • The reported value differs from the selected requirement.
                          • P3-CD4.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; ce...
                        • Case: specimen category excludes: Biofluid — Meets requirement
                          • Supported by the indexed evidence.
                          • Control: organism: Homo sapiens — Insufficient evidence
                            • The required value is not reported.
                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                              • The required value is not reported.
                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                • The required value is not reported.
                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                  • Supported by the indexed evidence.
                                  • The reported value differs from the selected requirement.
                                  • P3-CD4.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; ce...
                                • Control: specimen category excludes: Biofluid — Meets requirement
                                  • Supported by the indexed evidence.
                                  Source metadata
                                  Source name
                                  intestinal cells
                                  Characteristics
                                  disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; cell line/clone: clone; tissue: duodenum; gender: M
                                  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: GSM819182
                                  sample_title: P3-CD4.2
                                  source_name: intestinal cells
                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control clone from RCDII patient 3; cell line/clone: clone; tissue: duodenum; gender: M

                                  GSM819183

                                  Excluded

                                  P1-CD4.1

                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                  Requirements and decision evidence
                                  • Case: organism: Homo sapiens — Insufficient evidence
                                    • The required value is not reported.
                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                      • The required value is not reported.
                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                        • The required value is not reported.
                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                          • Supported by the indexed evidence.
                                          • The reported value differs from the selected requirement.
                                          • P1-CD4.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                          • Supported by the indexed evidence.
                                          • Control: organism: Homo sapiens — Insufficient evidence
                                            • The required value is not reported.
                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                              • The required value is not reported.
                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                • The required value is not reported.
                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                  • Supported by the indexed evidence.
                                                  • The reported value differs from the selected requirement.
                                                  • P1-CD4.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                  • Supported by the indexed evidence.
                                                  Source metadata
                                                  Source name
                                                  intestinal cells
                                                  Characteristics
                                                  disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F
                                                  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: GSM819183
                                                  sample_title: P1-CD4.1
                                                  source_name: intestinal cells
                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F

                                                  GSM819184

                                                  Excluded

                                                  P1-CD4.2

                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                  Requirements and decision evidence
                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                    • The required value is not reported.
                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                      • The required value is not reported.
                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                        • The required value is not reported.
                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                          • Supported by the indexed evidence.
                                                          • The reported value differs from the selected requirement.
                                                          • P1-CD4.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                          • Supported by the indexed evidence.
                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                            • The required value is not reported.
                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                              • The required value is not reported.
                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                • The required value is not reported.
                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                  • Supported by the indexed evidence.
                                                                  • The reported value differs from the selected requirement.
                                                                  • P1-CD4.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                  • Supported by the indexed evidence.
                                                                  Source metadata
                                                                  Source name
                                                                  intestinal cells
                                                                  Characteristics
                                                                  disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F
                                                                  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: GSM819184
                                                                  sample_title: P1-CD4.2
                                                                  source_name: intestinal cells
                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3+CD4+ CD8-; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F

                                                                  GSM819185

                                                                  Excluded

                                                                  P1-CD8.1

                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                  Requirements and decision evidence
                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                    • The required value is not reported.
                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                      • The required value is not reported.
                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                        • The required value is not reported.
                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                          • Supported by the indexed evidence.
                                                                          • The reported value differs from the selected requirement.
                                                                          • P1-CD8.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                          • Supported by the indexed evidence.
                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                            • The required value is not reported.
                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                              • The required value is not reported.
                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                • The required value is not reported.
                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                  • Supported by the indexed evidence.
                                                                                  • The reported value differs from the selected requirement.
                                                                                  • P1-CD8.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                  • Supported by the indexed evidence.
                                                                                  Source metadata
                                                                                  Source name
                                                                                  intestinal cells
                                                                                  Characteristics
                                                                                  disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F
                                                                                  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: GSM819185
                                                                                  sample_title: P1-CD8.1
                                                                                  source_name: intestinal cells
                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F

                                                                                  GSM819186

                                                                                  Excluded

                                                                                  P1-CD8.2

                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                  Requirements and decision evidence
                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                    • The required value is not reported.
                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                      • The required value is not reported.
                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                        • The required value is not reported.
                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                          • Supported by the indexed evidence.
                                                                                          • The reported value differs from the selected requirement.
                                                                                          • P1-CD8.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                          • Supported by the indexed evidence.
                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                            • The required value is not reported.
                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                              • The required value is not reported.
                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                • The required value is not reported.
                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                  • Supported by the indexed evidence.
                                                                                                  • The reported value differs from the selected requirement.
                                                                                                  • P1-CD8.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cel...
                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                  • Supported by the indexed evidence.
                                                                                                  Source metadata
                                                                                                  Source name
                                                                                                  intestinal cells
                                                                                                  Characteristics
                                                                                                  disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                  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: GSM819186
                                                                                                  sample_title: P1-CD8.2
                                                                                                  source_name: intestinal cells
                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3+CD4- CD8+; overall phenotype: T cell; patients: control line from RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                  GSM819187

                                                                                                  Excluded

                                                                                                  P1.1

                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                  Requirements and decision evidence
                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                    • The required value is not reported.
                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                      • The required value is not reported.
                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                        • The required value is not reported.
                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                          • Supported by the indexed evidence.
                                                                                                          • The reported value differs from the selected requirement.
                                                                                                          • P1.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clon...
                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                          • Supported by the indexed evidence.
                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                            • The required value is not reported.
                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                              • The required value is not reported.
                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                • The required value is not reported.
                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                  • Supported by the indexed evidence.
                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                  • P1.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clon...
                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                  • Supported by the indexed evidence.
                                                                                                                  Source metadata
                                                                                                                  Source name
                                                                                                                  intestinal cells
                                                                                                                  Characteristics
                                                                                                                  disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                                  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: GSM819187
                                                                                                                  sample_title: P1.1
                                                                                                                  source_name: intestinal cells
                                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                                  GSM819188

                                                                                                                  Excluded

                                                                                                                  P1.2

                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                  Requirements and decision evidence
                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                    • The required value is not reported.
                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                      • The required value is not reported.
                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                        • The required value is not reported.
                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                          • Supported by the indexed evidence.
                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                          • P1.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clon...
                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                          • Supported by the indexed evidence.
                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                            • The required value is not reported.
                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                              • The required value is not reported.
                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                • The required value is not reported.
                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                  • P1.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clon...
                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                  Source metadata
                                                                                                                                  Source name
                                                                                                                                  intestinal cells
                                                                                                                                  Characteristics
                                                                                                                                  disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                                                  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: GSM819188
                                                                                                                                  sample_title: P1.2
                                                                                                                                  source_name: intestinal cells
                                                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 1; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                                                  GSM819189

                                                                                                                                  Excluded

                                                                                                                                  P2.1

                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                  Requirements and decision evidence
                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                    • The required value is not reported.
                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                      • The required value is not reported.
                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                        • The required value is not reported.
                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                          • P2.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clon...
                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                            • The required value is not reported.
                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                              • The required value is not reported.
                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                • The required value is not reported.
                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                  • P2.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clon...
                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                  Source metadata
                                                                                                                                                  Source name
                                                                                                                                                  intestinal cells
                                                                                                                                                  Characteristics
                                                                                                                                                  disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                  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: GSM819189
                                                                                                                                                  sample_title: P2.1
                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                  GSM819190

                                                                                                                                                  Excluded

                                                                                                                                                  P2.2

                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                    • The required value is not reported.
                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                      • The required value is not reported.
                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                        • The required value is not reported.
                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                          • P2.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clon...
                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                            • The required value is not reported.
                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                              • The required value is not reported.
                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                  • P2.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clon...
                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                  Source metadata
                                                                                                                                                                  Source name
                                                                                                                                                                  intestinal cells
                                                                                                                                                                  Characteristics
                                                                                                                                                                  disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                  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: GSM819190
                                                                                                                                                                  sample_title: P2.2
                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 2; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                  GSM819191

                                                                                                                                                                  Excluded

                                                                                                                                                                  P3.1

                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                          • P3.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clon...
                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                  • P3.1 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clon...
                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                  Source metadata
                                                                                                                                                                                  Source name
                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                  Characteristics
                                                                                                                                                                                  disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                                  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: GSM819191
                                                                                                                                                                                  sample_title: P3.1
                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                                  GSM819192

                                                                                                                                                                                  Excluded

                                                                                                                                                                                  P3.2

                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                          • P3.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clon...
                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                  • P3.2 intestinal cells disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clon...
                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                  Source name
                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                  disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                                                  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: GSM819192
                                                                                                                                                                                                  sample_title: P3.2
                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                  characteristics: disease status of patient: RCDII; surface marker expression: CD3-CD4-CD8-; overall phenotype: aberrant cell; patients: line RCDII patient 3; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                                                  GSM819193

                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                  IEL1.1

                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                          • IEL1.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                  • IEL1.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                                                                  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: GSM819193
                                                                                                                                                                                                                  sample_title: IEL1.1
                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                                                                  GSM819194

                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                  IEL1.2

                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                          • IEL1.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                  • IEL1.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                                                                                  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: GSM819194
                                                                                                                                                                                                                                  sample_title: IEL1.2
                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                                                                                  GSM819195

                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                  IEL2.1

                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                          • IEL2.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                  • IEL2.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                                                                                                  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: GSM819195
                                                                                                                                                                                                                                                  sample_title: IEL2.1
                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                                                                                                  GSM819196

                                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                                  IEL2.2

                                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                          • IEL2.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                  • IEL2.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M
                                                                                                                                                                                                                                                                  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: GSM819196
                                                                                                                                                                                                                                                                  sample_title: IEL2.2
                                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: M

                                                                                                                                                                                                                                                                  GSM819197

                                                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                                                  IEL3.1

                                                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                          • IEL3.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                  • IEL3.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                                                                                                                                                                                                  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: GSM819197
                                                                                                                                                                                                                                                                                  sample_title: IEL3.1
                                                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                                                                                                                                                                                                  GSM819198

                                                                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                                                                  IEL3.2

                                                                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                          • IEL3.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                  • IEL3.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                                                                                                                                                                                                                  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: GSM819198
                                                                                                                                                                                                                                                                                                  sample_title: IEL3.2
                                                                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                                                                                                                                                                                                                  GSM819199

                                                                                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                                                                                  IEL4.1

                                                                                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                          • IEL4.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                                  • IEL4.1 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                                                                                                                                                                                                                                  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: GSM819199
                                                                                                                                                                                                                                                                                                                  sample_title: IEL4.1
                                                                                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                                                                                                                                                                                                                                  GSM819200

                                                                                                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                                                                                                  IEL4.2

                                                                                                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. Case: organism: Homo sapiens — Insufficient evidence. Case: assay type: bulk RNA-seq — Insufficient evidence. Case: specimen category: Tissue or biopsy — Insufficient evidence. Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Control: organism: Homo sapiens — Insufficient evidence. Control: assay type: bulk RNA-seq — Insufficient evidence. Control: specimen category: Tissue or biopsy — Insufficient evidence. Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. Study role: No explicit case or control marker detected.

                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                  • Case: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                    • Case: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                      • Case: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                        • Case: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                                          • IEL4.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                                                        • Case: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                          • Control: organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                            • Control: assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                              • Control: specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                • Control: excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement
                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                                                  • IEL4.2 intestinal cells disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease...
                                                                                                                                                                                                                                                                                                                                • Control: specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                  disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F
                                                                                                                                                                                                                                                                                                                                  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: GSM819200
                                                                                                                                                                                                                                                                                                                                  sample_title: IEL4.2
                                                                                                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                                                                                                  characteristics: disease status of patient: celiac disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from celiac disease patient; cell line/clone: line; tissue: duodenum; gender: F

                                                                                                                                                                                                                                                                                                                                  GSM819201

                                                                                                                                                                                                                                                                                                                                  Excluded

                                                                                                                                                                                                                                                                                                                                  IEL5.1

                                                                                                                                                                                                                                                                                                                                  Excluded: at least one selected requirement is not met. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. 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 — Does not meet requirement
                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                          • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                                                          • IEL5.1 intestinal cells disease status of patient: crohn's disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from crohns diseas...
                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                          intestinal cells
                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                          disease status of patient: crohn's disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from crohns disease patient; cell line/clone: line; tissue: colon; gender: F
                                                                                                                                                                                                                                                                                                                                          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: GSM819201
                                                                                                                                                                                                                                                                                                                                          sample_title: IEL5.1
                                                                                                                                                                                                                                                                                                                                          source_name: intestinal cells
                                                                                                                                                                                                                                                                                                                                          characteristics: disease status of patient: crohn's disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from crohns disease patient; cell line/clone: line; tissue: colon; gender: F

                                                                                                                                                                                                                                                                                                                                          GSM819202

                                                                                                                                                                                                                                                                                                                                          Excluded

                                                                                                                                                                                                                                                                                                                                          IEL5.2

                                                                                                                                                                                                                                                                                                                                          Excluded: at least one selected requirement is not met. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. excluded sample type excludes: cell line, organoid, xenograft — Does not meet requirement. 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 — Does not meet requirement
                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                  • The reported value differs from the selected requirement.
                                                                                                                                                                                                                                                                                                                                                  • IEL5.2 intestinal cells disease status of patient: crohn's disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from crohns diseas...
                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Meets requirement
                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                  intestinal cells
                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                  disease status of patient: crohn's disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from crohns disease patient; cell line/clone: line; tissue: colon; gender: F
                                                                                                                                                                                                                                                                                                                                                  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: GSM819202
                                                                                                                                                                                                                                                                                                                                                  sample_title: IEL5.2
                                                                                                                                                                                                                                                                                                                                                  source_name: intestinal cells
                                                                                                                                                                                                                                                                                                                                                  characteristics: disease status of patient: crohn's disease; surface marker expression: CD3+CD4+CD8+; overall phenotype: T cell; patients: control line from crohns disease patient; cell line/clone: line; tissue: colon; gender: F