Matching samples

GSE116044 · miR-579-3p controls hepatocellular carcinoma formation by regulating the PI3K-AKT pathway in chronically inflamed liver (mRNA expression)

Download matching samples CSV
Selected cohort requirements

Samples meeting selected requirements: 0 cases / 0 controls

98 case / 0 control samples elsewhere in the study have incomplete or conflicting evidence; they are not included above

Patient pairs verified in indexed sample metadata: 0

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

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

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

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

Included samples (0)

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

Uncertain samples (98)

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

GSM3208016

Uncertain

20150528_MatterCancerRun3_C3_03

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

Requirements and decision evidence
  • organism: Homo sapiens — Insufficient evidence
    • The required value is not reported.
    • assay type: bulk RNA-seq — Insufficient evidence
      • The required value is not reported.
      • specimen category: Tissue or biopsy — Insufficient evidence
        • The required value is not reported.
        • 20150528_MatterCancerRun3_C3_03 HCC 1st Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F2; age: 36; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
        • 20150528_MatterCancerRun3_C3_03 HCC 1st Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F2; age: 36; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
        • Supported by the indexed evidence.
        • specimen category excludes: Biofluid — Insufficient evidence
          • The required value is not reported.
          • 20150528_MatterCancerRun3_C3_03 HCC 1st Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F2; age: 36; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
          • 20150528_MatterCancerRun3_C3_03 HCC 1st Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F2; age: 36; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
        Source metadata
        Source name
        HCC 1st Biopsy
        Characteristics
        patient.id: 8; tissue: Liver tissue; fibrosis stage: F2; age: 36; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
        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: GSM3208016
        sample_title: 20150528_MatterCancerRun3_C3_03
        source_name: HCC 1st Biopsy
        characteristics: patient.id: 8; tissue: Liver tissue; fibrosis stage: F2; age: 36; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

        GSM3208017

        Uncertain

        20150528_MatterCancerRun3_C4_04

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

        Requirements and decision evidence
        • organism: Homo sapiens — Insufficient evidence
          • The required value is not reported.
          • assay type: bulk RNA-seq — Insufficient evidence
            • The required value is not reported.
            • specimen category: Tissue or biopsy — Insufficient evidence
              • The required value is not reported.
              • 20150528_MatterCancerRun3_C4_04 HCC 2nd Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
              • 20150528_MatterCancerRun3_C4_04 HCC 2nd Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
              • Supported by the indexed evidence.
              • specimen category excludes: Biofluid — Insufficient evidence
                • The required value is not reported.
                • 20150528_MatterCancerRun3_C4_04 HCC 2nd Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                • 20150528_MatterCancerRun3_C4_04 HCC 2nd Biopsy patient.id: 8; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
              Source metadata
              Source name
              HCC 2nd Biopsy
              Characteristics
              patient.id: 8; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
              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: GSM3208017
              sample_title: 20150528_MatterCancerRun3_C4_04
              source_name: HCC 2nd Biopsy
              characteristics: patient.id: 8; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

              GSM3208018

              Uncertain

              20150528_MatterCancerRun4_D4_04

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

              Requirements and decision evidence
              • organism: Homo sapiens — Insufficient evidence
                • The required value is not reported.
                • assay type: bulk RNA-seq — Insufficient evidence
                  • The required value is not reported.
                  • specimen category: Tissue or biopsy — Insufficient evidence
                    • The required value is not reported.
                    • 20150528_MatterCancerRun4_D4_04 HCC 1st Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                    • 20150528_MatterCancerRun4_D4_04 HCC 1st Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                    • Supported by the indexed evidence.
                    • specimen category excludes: Biofluid — Insufficient evidence
                      • The required value is not reported.
                      • 20150528_MatterCancerRun4_D4_04 HCC 1st Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                      • 20150528_MatterCancerRun4_D4_04 HCC 1st Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                    Source metadata
                    Source name
                    HCC 1st Biopsy
                    Characteristics
                    patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                    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: GSM3208018
                    sample_title: 20150528_MatterCancerRun4_D4_04
                    source_name: HCC 1st Biopsy
                    characteristics: patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                    GSM3208019

                    Uncertain

                    20150528_MatterCancerRun4_D5_05

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

                    Requirements and decision evidence
                    • organism: Homo sapiens — Insufficient evidence
                      • The required value is not reported.
                      • assay type: bulk RNA-seq — Insufficient evidence
                        • The required value is not reported.
                        • specimen category: Tissue or biopsy — Insufficient evidence
                          • The required value is not reported.
                          • 20150528_MatterCancerRun4_D5_05 HCC 2nd Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                          • 20150528_MatterCancerRun4_D5_05 HCC 2nd Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                          • Supported by the indexed evidence.
                          • specimen category excludes: Biofluid — Insufficient evidence
                            • The required value is not reported.
                            • 20150528_MatterCancerRun4_D5_05 HCC 2nd Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                            • 20150528_MatterCancerRun4_D5_05 HCC 2nd Biopsy patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver d...
                          Source metadata
                          Source name
                          HCC 2nd Biopsy
                          Characteristics
                          patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                          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: GSM3208019
                          sample_title: 20150528_MatterCancerRun4_D5_05
                          source_name: HCC 2nd Biopsy
                          characteristics: patient.id: 9; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                          GSM3208020

                          Uncertain

                          20150528_MatterCancerRun4_D7_07

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

                          Requirements and decision evidence
                          • organism: Homo sapiens — Insufficient evidence
                            • The required value is not reported.
                            • assay type: bulk RNA-seq — Insufficient evidence
                              • The required value is not reported.
                              • specimen category: Tissue or biopsy — Insufficient evidence
                                • The required value is not reported.
                                • 20150528_MatterCancerRun4_D7_07 HCC 1st Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                • 20150528_MatterCancerRun4_D7_07 HCC 1st Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                • Supported by the indexed evidence.
                                • specimen category excludes: Biofluid — Insufficient evidence
                                  • The required value is not reported.
                                  • 20150528_MatterCancerRun4_D7_07 HCC 1st Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                  • 20150528_MatterCancerRun4_D7_07 HCC 1st Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                Source metadata
                                Source name
                                HCC 1st Biopsy
                                Characteristics
                                patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                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: GSM3208020
                                sample_title: 20150528_MatterCancerRun4_D7_07
                                source_name: HCC 1st Biopsy
                                characteristics: patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                GSM3208021

                                Uncertain

                                20150528_MatterCancerRun4_D8_08

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

                                Requirements and decision evidence
                                • organism: Homo sapiens — Insufficient evidence
                                  • The required value is not reported.
                                  • assay type: bulk RNA-seq — Insufficient evidence
                                    • The required value is not reported.
                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                      • The required value is not reported.
                                      • 20150528_MatterCancerRun4_D8_08 HCC 2nd Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                      • 20150528_MatterCancerRun4_D8_08 HCC 2nd Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                      • Supported by the indexed evidence.
                                      • specimen category excludes: Biofluid — Insufficient evidence
                                        • The required value is not reported.
                                        • 20150528_MatterCancerRun4_D8_08 HCC 2nd Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                        • 20150528_MatterCancerRun4_D8_08 HCC 2nd Biopsy patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                      Source metadata
                                      Source name
                                      HCC 2nd Biopsy
                                      Characteristics
                                      patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                      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: GSM3208021
                                      sample_title: 20150528_MatterCancerRun4_D8_08
                                      source_name: HCC 2nd Biopsy
                                      characteristics: patient.id: 10; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                      GSM3208022

                                      Uncertain

                                      20150528_MatterCancerRun4_D10_10

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

                                      Requirements and decision evidence
                                      • organism: Homo sapiens — Insufficient evidence
                                        • The required value is not reported.
                                        • assay type: bulk RNA-seq — Insufficient evidence
                                          • The required value is not reported.
                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                            • The required value is not reported.
                                            • 20150528_MatterCancerRun4_D10_10 HCC 1st Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 34; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                            • 20150528_MatterCancerRun4_D10_10 HCC 1st Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 34; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                            • Supported by the indexed evidence.
                                            • specimen category excludes: Biofluid — Insufficient evidence
                                              • The required value is not reported.
                                              • 20150528_MatterCancerRun4_D10_10 HCC 1st Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 34; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                              • 20150528_MatterCancerRun4_D10_10 HCC 1st Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 34; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                            Source metadata
                                            Source name
                                            HCC 1st Biopsy
                                            Characteristics
                                            patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 34; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                            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: GSM3208022
                                            sample_title: 20150528_MatterCancerRun4_D10_10
                                            source_name: HCC 1st Biopsy
                                            characteristics: patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 34; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                            GSM3208023

                                            Uncertain

                                            20150528_MatterCancerRun4_D11_11

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

                                            Requirements and decision evidence
                                            • organism: Homo sapiens — Insufficient evidence
                                              • The required value is not reported.
                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                • The required value is not reported.
                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                  • The required value is not reported.
                                                  • 20150528_MatterCancerRun4_D11_11 HCC 2nd Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                  • 20150528_MatterCancerRun4_D11_11 HCC 2nd Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                  • Supported by the indexed evidence.
                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                    • The required value is not reported.
                                                    • 20150528_MatterCancerRun4_D11_11 HCC 2nd Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                    • 20150528_MatterCancerRun4_D11_11 HCC 2nd Biopsy patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                  Source metadata
                                                  Source name
                                                  HCC 2nd Biopsy
                                                  Characteristics
                                                  patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                  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: GSM3208023
                                                  sample_title: 20150528_MatterCancerRun4_D11_11
                                                  source_name: HCC 2nd Biopsy
                                                  characteristics: patient.id: 11; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                  GSM3208024

                                                  Uncertain

                                                  20150624_MatterCancerRun11_M4_04

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

                                                  Requirements and decision evidence
                                                  • organism: Homo sapiens — Insufficient evidence
                                                    • The required value is not reported.
                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                      • The required value is not reported.
                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                        • The required value is not reported.
                                                        • 20150624_MatterCancerRun11_M4_04 HCC 1st Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F2; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                        • 20150624_MatterCancerRun11_M4_04 HCC 1st Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F2; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                        • Supported by the indexed evidence.
                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                          • The required value is not reported.
                                                          • 20150624_MatterCancerRun11_M4_04 HCC 1st Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F2; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                          • 20150624_MatterCancerRun11_M4_04 HCC 1st Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F2; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                        Source metadata
                                                        Source name
                                                        HCC 1st Biopsy
                                                        Characteristics
                                                        patient.id: 12; tissue: Liver tissue; fibrosis stage: F2; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                        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: GSM3208024
                                                        sample_title: 20150624_MatterCancerRun11_M4_04
                                                        source_name: HCC 1st Biopsy
                                                        characteristics: patient.id: 12; tissue: Liver tissue; fibrosis stage: F2; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                        GSM3208025

                                                        Uncertain

                                                        20150624_MatterCancerRun11_M5_05

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

                                                        Requirements and decision evidence
                                                        • organism: Homo sapiens — Insufficient evidence
                                                          • The required value is not reported.
                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                            • The required value is not reported.
                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                              • The required value is not reported.
                                                              • 20150624_MatterCancerRun11_M5_05 HCC 2nd Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F4; age: 69; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                              • 20150624_MatterCancerRun11_M5_05 HCC 2nd Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F4; age: 69; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                              • Supported by the indexed evidence.
                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                • The required value is not reported.
                                                                • 20150624_MatterCancerRun11_M5_05 HCC 2nd Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F4; age: 69; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                • 20150624_MatterCancerRun11_M5_05 HCC 2nd Biopsy patient.id: 12; tissue: Liver tissue; fibrosis stage: F4; age: 69; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                              Source metadata
                                                              Source name
                                                              HCC 2nd Biopsy
                                                              Characteristics
                                                              patient.id: 12; tissue: Liver tissue; fibrosis stage: F4; age: 69; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                              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: GSM3208025
                                                              sample_title: 20150624_MatterCancerRun11_M5_05
                                                              source_name: HCC 2nd Biopsy
                                                              characteristics: patient.id: 12; tissue: Liver tissue; fibrosis stage: F4; age: 69; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                              GSM3208026

                                                              Uncertain

                                                              20150528_MatterCancerRun3_C5_05

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

                                                              Requirements and decision evidence
                                                              • organism: Homo sapiens — Insufficient evidence
                                                                • The required value is not reported.
                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                  • The required value is not reported.
                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                    • The required value is not reported.
                                                                    • 20150528_MatterCancerRun3_C5_05 HCC 1st Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F2; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                    • 20150528_MatterCancerRun3_C5_05 HCC 1st Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F2; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                    • Supported by the indexed evidence.
                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                      • The required value is not reported.
                                                                      • 20150528_MatterCancerRun3_C5_05 HCC 1st Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F2; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                      • 20150528_MatterCancerRun3_C5_05 HCC 1st Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F2; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                    Source metadata
                                                                    Source name
                                                                    HCC 1st Biopsy
                                                                    Characteristics
                                                                    patient.id: 13; tissue: Liver tissue; fibrosis stage: F2; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                    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: GSM3208026
                                                                    sample_title: 20150528_MatterCancerRun3_C5_05
                                                                    source_name: HCC 1st Biopsy
                                                                    characteristics: patient.id: 13; tissue: Liver tissue; fibrosis stage: F2; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                    GSM3208027

                                                                    Uncertain

                                                                    20150528_MatterCancerRun3_C6_06

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

                                                                    Requirements and decision evidence
                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                      • The required value is not reported.
                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                        • The required value is not reported.
                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                          • The required value is not reported.
                                                                          • 20150528_MatterCancerRun3_C6_06 HCC 2nd Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                          • 20150528_MatterCancerRun3_C6_06 HCC 2nd Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                          • Supported by the indexed evidence.
                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                            • The required value is not reported.
                                                                            • 20150528_MatterCancerRun3_C6_06 HCC 2nd Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                            • 20150528_MatterCancerRun3_C6_06 HCC 2nd Biopsy patient.id: 13; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                          Source metadata
                                                                          Source name
                                                                          HCC 2nd Biopsy
                                                                          Characteristics
                                                                          patient.id: 13; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                          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: GSM3208027
                                                                          sample_title: 20150528_MatterCancerRun3_C6_06
                                                                          source_name: HCC 2nd Biopsy
                                                                          characteristics: patient.id: 13; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                          GSM3208028

                                                                          Uncertain

                                                                          20150603_MatterCancerRun5_E1_01

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

                                                                          Requirements and decision evidence
                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                            • The required value is not reported.
                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                              • The required value is not reported.
                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                • The required value is not reported.
                                                                                • 20150603_MatterCancerRun5_E1_01 HCC 1st Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                • 20150603_MatterCancerRun5_E1_01 HCC 1st Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                • Supported by the indexed evidence.
                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                  • The required value is not reported.
                                                                                  • 20150603_MatterCancerRun5_E1_01 HCC 1st Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                  • 20150603_MatterCancerRun5_E1_01 HCC 1st Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                Source metadata
                                                                                Source name
                                                                                HCC 1st Biopsy
                                                                                Characteristics
                                                                                patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                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: GSM3208028
                                                                                sample_title: 20150603_MatterCancerRun5_E1_01
                                                                                source_name: HCC 1st Biopsy
                                                                                characteristics: patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                GSM3208029

                                                                                Uncertain

                                                                                20150603_MatterCancerRun5_E2_02

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

                                                                                Requirements and decision evidence
                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                  • The required value is not reported.
                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                    • The required value is not reported.
                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                      • The required value is not reported.
                                                                                      • 20150603_MatterCancerRun5_E2_02 HCC 2nd Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                      • 20150603_MatterCancerRun5_E2_02 HCC 2nd Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                      • Supported by the indexed evidence.
                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                        • The required value is not reported.
                                                                                        • 20150603_MatterCancerRun5_E2_02 HCC 2nd Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                        • 20150603_MatterCancerRun5_E2_02 HCC 2nd Biopsy patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                      Source metadata
                                                                                      Source name
                                                                                      HCC 2nd Biopsy
                                                                                      Characteristics
                                                                                      patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                      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: GSM3208029
                                                                                      sample_title: 20150603_MatterCancerRun5_E2_02
                                                                                      source_name: HCC 2nd Biopsy
                                                                                      characteristics: patient.id: 14; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                      GSM3208030

                                                                                      Uncertain

                                                                                      20150603_MatterCancerRun5_E4_04

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

                                                                                      Requirements and decision evidence
                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                        • The required value is not reported.
                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                          • The required value is not reported.
                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                            • The required value is not reported.
                                                                                            • 20150603_MatterCancerRun5_E4_04 HCC 1st Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                            • 20150603_MatterCancerRun5_E4_04 HCC 1st Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                            • Supported by the indexed evidence.
                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                              • The required value is not reported.
                                                                                              • 20150603_MatterCancerRun5_E4_04 HCC 1st Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                              • 20150603_MatterCancerRun5_E4_04 HCC 1st Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                            Source metadata
                                                                                            Source name
                                                                                            HCC 1st Biopsy
                                                                                            Characteristics
                                                                                            patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                            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: GSM3208030
                                                                                            sample_title: 20150603_MatterCancerRun5_E4_04
                                                                                            source_name: HCC 1st Biopsy
                                                                                            characteristics: patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                            GSM3208031

                                                                                            Uncertain

                                                                                            20150603_MatterCancerRun5_E5_05

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

                                                                                            Requirements and decision evidence
                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                              • The required value is not reported.
                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                • The required value is not reported.
                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                  • The required value is not reported.
                                                                                                  • 20150603_MatterCancerRun5_E5_05 HCC 2nd Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 73; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                  • 20150603_MatterCancerRun5_E5_05 HCC 2nd Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 73; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                  • Supported by the indexed evidence.
                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                    • The required value is not reported.
                                                                                                    • 20150603_MatterCancerRun5_E5_05 HCC 2nd Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 73; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                    • 20150603_MatterCancerRun5_E5_05 HCC 2nd Biopsy patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 73; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                  Source metadata
                                                                                                  Source name
                                                                                                  HCC 2nd Biopsy
                                                                                                  Characteristics
                                                                                                  patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 73; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                  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: GSM3208031
                                                                                                  sample_title: 20150603_MatterCancerRun5_E5_05
                                                                                                  source_name: HCC 2nd Biopsy
                                                                                                  characteristics: patient.id: 16; tissue: Liver tissue; fibrosis stage: F4; age: 73; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                  GSM3208032

                                                                                                  Uncertain

                                                                                                  20150603_MatterCancerRun5_E6_06

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

                                                                                                  Requirements and decision evidence
                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                    • The required value is not reported.
                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                      • The required value is not reported.
                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                        • The required value is not reported.
                                                                                                        • 20150603_MatterCancerRun5_E6_06 HCC 1st Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                        • 20150603_MatterCancerRun5_E6_06 HCC 1st Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                        • Supported by the indexed evidence.
                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                          • The required value is not reported.
                                                                                                          • 20150603_MatterCancerRun5_E6_06 HCC 1st Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                          • 20150603_MatterCancerRun5_E6_06 HCC 1st Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                        Source metadata
                                                                                                        Source name
                                                                                                        HCC 1st Biopsy
                                                                                                        Characteristics
                                                                                                        patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                        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: GSM3208032
                                                                                                        sample_title: 20150603_MatterCancerRun5_E6_06
                                                                                                        source_name: HCC 1st Biopsy
                                                                                                        characteristics: patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                        GSM3208033

                                                                                                        Uncertain

                                                                                                        20150603_MatterCancerRun5_E7_07

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

                                                                                                        Requirements and decision evidence
                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                          • The required value is not reported.
                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                            • The required value is not reported.
                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                              • The required value is not reported.
                                                                                                              • 20150603_MatterCancerRun5_E7_07 HCC 2nd Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 63; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                              • 20150603_MatterCancerRun5_E7_07 HCC 2nd Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 63; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                              • Supported by the indexed evidence.
                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                • The required value is not reported.
                                                                                                                • 20150603_MatterCancerRun5_E7_07 HCC 2nd Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 63; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                • 20150603_MatterCancerRun5_E7_07 HCC 2nd Biopsy patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 63; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                              Source metadata
                                                                                                              Source name
                                                                                                              HCC 2nd Biopsy
                                                                                                              Characteristics
                                                                                                              patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 63; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                              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: GSM3208033
                                                                                                              sample_title: 20150603_MatterCancerRun5_E7_07
                                                                                                              source_name: HCC 2nd Biopsy
                                                                                                              characteristics: patient.id: 17; tissue: Liver tissue; fibrosis stage: F4; age: 63; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                              GSM3208034

                                                                                                              Uncertain

                                                                                                              20150603_MatterCancerRun5_E8_08

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

                                                                                                              Requirements and decision evidence
                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                • The required value is not reported.
                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                  • The required value is not reported.
                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                    • The required value is not reported.
                                                                                                                    • 20150603_MatterCancerRun5_E8_08 HCC 1st Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                    • 20150603_MatterCancerRun5_E8_08 HCC 1st Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                    • Supported by the indexed evidence.
                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                      • The required value is not reported.
                                                                                                                      • 20150603_MatterCancerRun5_E8_08 HCC 1st Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                      • 20150603_MatterCancerRun5_E8_08 HCC 1st Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                    Source metadata
                                                                                                                    Source name
                                                                                                                    HCC 1st Biopsy
                                                                                                                    Characteristics
                                                                                                                    patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                    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: GSM3208034
                                                                                                                    sample_title: 20150603_MatterCancerRun5_E8_08
                                                                                                                    source_name: HCC 1st Biopsy
                                                                                                                    characteristics: patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                    GSM3208035

                                                                                                                    Uncertain

                                                                                                                    20150603_MatterCancerRun5_E9_09

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

                                                                                                                    Requirements and decision evidence
                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                      • The required value is not reported.
                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                        • The required value is not reported.
                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                          • The required value is not reported.
                                                                                                                          • 20150603_MatterCancerRun5_E9_09 HCC 2nd Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 64; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                          • 20150603_MatterCancerRun5_E9_09 HCC 2nd Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 64; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                          • Supported by the indexed evidence.
                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                            • The required value is not reported.
                                                                                                                            • 20150603_MatterCancerRun5_E9_09 HCC 2nd Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 64; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                            • 20150603_MatterCancerRun5_E9_09 HCC 2nd Biopsy patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 64; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                          Source metadata
                                                                                                                          Source name
                                                                                                                          HCC 2nd Biopsy
                                                                                                                          Characteristics
                                                                                                                          patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 64; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                          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: GSM3208035
                                                                                                                          sample_title: 20150603_MatterCancerRun5_E9_09
                                                                                                                          source_name: HCC 2nd Biopsy
                                                                                                                          characteristics: patient.id: 18; tissue: Liver tissue; fibrosis stage: F4; age: 64; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                          GSM3208036

                                                                                                                          Uncertain

                                                                                                                          20150625_MatterCancerRun13_O5_05

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

                                                                                                                          Requirements and decision evidence
                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                            • The required value is not reported.
                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                              • The required value is not reported.
                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                • The required value is not reported.
                                                                                                                                • 20150625_MatterCancerRun13_O5_05 HCC 1st Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                • 20150625_MatterCancerRun13_O5_05 HCC 1st Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                  • The required value is not reported.
                                                                                                                                  • 20150625_MatterCancerRun13_O5_05 HCC 1st Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                  • 20150625_MatterCancerRun13_O5_05 HCC 1st Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                Source metadata
                                                                                                                                Source name
                                                                                                                                HCC 1st Biopsy
                                                                                                                                Characteristics
                                                                                                                                patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                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: GSM3208036
                                                                                                                                sample_title: 20150625_MatterCancerRun13_O5_05
                                                                                                                                source_name: HCC 1st Biopsy
                                                                                                                                characteristics: patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                GSM3208037

                                                                                                                                Uncertain

                                                                                                                                20150625_MatterCancerRun13_O6_06

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

                                                                                                                                Requirements and decision evidence
                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                  • The required value is not reported.
                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                    • The required value is not reported.
                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                      • The required value is not reported.
                                                                                                                                      • 20150625_MatterCancerRun13_O6_06 HCC 2nd Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                      • 20150625_MatterCancerRun13_O6_06 HCC 2nd Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                        • The required value is not reported.
                                                                                                                                        • 20150625_MatterCancerRun13_O6_06 HCC 2nd Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                        • 20150625_MatterCancerRun13_O6_06 HCC 2nd Biopsy patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver ...
                                                                                                                                      Source metadata
                                                                                                                                      Source name
                                                                                                                                      HCC 2nd Biopsy
                                                                                                                                      Characteristics
                                                                                                                                      patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                      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: GSM3208037
                                                                                                                                      sample_title: 20150625_MatterCancerRun13_O6_06
                                                                                                                                      source_name: HCC 2nd Biopsy
                                                                                                                                      characteristics: patient.id: 19; tissue: Liver tissue; fibrosis stage: F4; age: 57; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                      GSM3208038

                                                                                                                                      Uncertain

                                                                                                                                      20150603_MatterCancerRun6_F8_08

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

                                                                                                                                      Requirements and decision evidence
                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                        • The required value is not reported.
                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                          • The required value is not reported.
                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                            • The required value is not reported.
                                                                                                                                            • 20150603_MatterCancerRun6_F8_08 HCC 1st Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F1; age: 39; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                            • 20150603_MatterCancerRun6_F8_08 HCC 1st Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F1; age: 39; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                              • The required value is not reported.
                                                                                                                                              • 20150603_MatterCancerRun6_F8_08 HCC 1st Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F1; age: 39; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                              • 20150603_MatterCancerRun6_F8_08 HCC 1st Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F1; age: 39; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                            Source metadata
                                                                                                                                            Source name
                                                                                                                                            HCC 1st Biopsy
                                                                                                                                            Characteristics
                                                                                                                                            patient.id: 21; tissue: Liver tissue; fibrosis stage: F1; age: 39; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                            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: GSM3208038
                                                                                                                                            sample_title: 20150603_MatterCancerRun6_F8_08
                                                                                                                                            source_name: HCC 1st Biopsy
                                                                                                                                            characteristics: patient.id: 21; tissue: Liver tissue; fibrosis stage: F1; age: 39; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                            GSM3208039

                                                                                                                                            Uncertain

                                                                                                                                            20150603_MatterCancerRun6_F9_09

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

                                                                                                                                            Requirements and decision evidence
                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                              • The required value is not reported.
                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                • The required value is not reported.
                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                  • The required value is not reported.
                                                                                                                                                  • 20150603_MatterCancerRun6_F9_09 HCC 2nd Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                                  • 20150603_MatterCancerRun6_F9_09 HCC 2nd Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                    • The required value is not reported.
                                                                                                                                                    • 20150603_MatterCancerRun6_F9_09 HCC 2nd Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                                    • 20150603_MatterCancerRun6_F9_09 HCC 2nd Biopsy patient.id: 21; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver d...
                                                                                                                                                  Source metadata
                                                                                                                                                  Source name
                                                                                                                                                  HCC 2nd Biopsy
                                                                                                                                                  Characteristics
                                                                                                                                                  patient.id: 21; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                  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: GSM3208039
                                                                                                                                                  sample_title: 20150603_MatterCancerRun6_F9_09
                                                                                                                                                  source_name: HCC 2nd Biopsy
                                                                                                                                                  characteristics: patient.id: 21; tissue: Liver tissue; fibrosis stage: F4; age: 55; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                  GSM3208040

                                                                                                                                                  Uncertain

                                                                                                                                                  20150618_MatterCancerRun7postBo_G1_01

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

                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                    • The required value is not reported.
                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                      • The required value is not reported.
                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                        • The required value is not reported.
                                                                                                                                                        • 20150618_MatterCancerRun7postBo_G1_01 HCC 1st Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F3; age: 37; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                        • 20150618_MatterCancerRun7postBo_G1_01 HCC 1st Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F3; age: 37; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                          • The required value is not reported.
                                                                                                                                                          • 20150618_MatterCancerRun7postBo_G1_01 HCC 1st Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F3; age: 37; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                          • 20150618_MatterCancerRun7postBo_G1_01 HCC 1st Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F3; age: 37; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                        Source metadata
                                                                                                                                                        Source name
                                                                                                                                                        HCC 1st Biopsy
                                                                                                                                                        Characteristics
                                                                                                                                                        patient.id: 22; tissue: Liver tissue; fibrosis stage: F3; age: 37; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                        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: GSM3208040
                                                                                                                                                        sample_title: 20150618_MatterCancerRun7postBo_G1_01
                                                                                                                                                        source_name: HCC 1st Biopsy
                                                                                                                                                        characteristics: patient.id: 22; tissue: Liver tissue; fibrosis stage: F3; age: 37; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                        GSM3208041

                                                                                                                                                        Uncertain

                                                                                                                                                        20150618_MatterCancerRun7postBo_G2_02

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

                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                          • The required value is not reported.
                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                            • The required value is not reported.
                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                              • The required value is not reported.
                                                                                                                                                              • 20150618_MatterCancerRun7postBo_G2_02 HCC 2nd Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                              • 20150618_MatterCancerRun7postBo_G2_02 HCC 2nd Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                • 20150618_MatterCancerRun7postBo_G2_02 HCC 2nd Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                                • 20150618_MatterCancerRun7postBo_G2_02 HCC 2nd Biopsy patient.id: 22; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE;...
                                                                                                                                                              Source metadata
                                                                                                                                                              Source name
                                                                                                                                                              HCC 2nd Biopsy
                                                                                                                                                              Characteristics
                                                                                                                                                              patient.id: 22; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                              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: GSM3208041
                                                                                                                                                              sample_title: 20150618_MatterCancerRun7postBo_G2_02
                                                                                                                                                              source_name: HCC 2nd Biopsy
                                                                                                                                                              characteristics: patient.id: 22; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: FALSE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                              GSM3208042

                                                                                                                                                              Uncertain

                                                                                                                                                              20150625_MatterCancerRun13_O7_07

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

                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                    • 20150625_MatterCancerRun13_O7_07 HCC 1st Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                    • 20150625_MatterCancerRun13_O7_07 HCC 1st Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                      • 20150625_MatterCancerRun13_O7_07 HCC 1st Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                      • 20150625_MatterCancerRun13_O7_07 HCC 1st Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                    Source metadata
                                                                                                                                                                    Source name
                                                                                                                                                                    HCC 1st Biopsy
                                                                                                                                                                    Characteristics
                                                                                                                                                                    patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                    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: GSM3208042
                                                                                                                                                                    sample_title: 20150625_MatterCancerRun13_O7_07
                                                                                                                                                                    source_name: HCC 1st Biopsy
                                                                                                                                                                    characteristics: patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                    GSM3208043

                                                                                                                                                                    Uncertain

                                                                                                                                                                    20150625_MatterCancerRun13_O8_08

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

                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                          • 20150625_MatterCancerRun13_O8_08 HCC 2nd Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                          • 20150625_MatterCancerRun13_O8_08 HCC 2nd Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                            • 20150625_MatterCancerRun13_O8_08 HCC 2nd Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                            • 20150625_MatterCancerRun13_O8_08 HCC 2nd Biopsy patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                          Source metadata
                                                                                                                                                                          Source name
                                                                                                                                                                          HCC 2nd Biopsy
                                                                                                                                                                          Characteristics
                                                                                                                                                                          patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                          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: GSM3208043
                                                                                                                                                                          sample_title: 20150625_MatterCancerRun13_O8_08
                                                                                                                                                                          source_name: HCC 2nd Biopsy
                                                                                                                                                                          characteristics: patient.id: 28; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                          GSM3208044

                                                                                                                                                                          Uncertain

                                                                                                                                                                          20150618_MatterCancerRun7postBo_G3_03

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

                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                • 20150618_MatterCancerRun7postBo_G3_03 HCC 1st Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F2; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                • 20150618_MatterCancerRun7postBo_G3_03 HCC 1st Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F2; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                  • 20150618_MatterCancerRun7postBo_G3_03 HCC 1st Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F2; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                  • 20150618_MatterCancerRun7postBo_G3_03 HCC 1st Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F2; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                Source metadata
                                                                                                                                                                                Source name
                                                                                                                                                                                HCC 1st Biopsy
                                                                                                                                                                                Characteristics
                                                                                                                                                                                patient.id: 29; tissue: Liver tissue; fibrosis stage: F2; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                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: GSM3208044
                                                                                                                                                                                sample_title: 20150618_MatterCancerRun7postBo_G3_03
                                                                                                                                                                                source_name: HCC 1st Biopsy
                                                                                                                                                                                characteristics: patient.id: 29; tissue: Liver tissue; fibrosis stage: F2; age: 45; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                GSM3208045

                                                                                                                                                                                Uncertain

                                                                                                                                                                                20150618_MatterCancerRun7postBo_G4_04

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

                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                      • 20150618_MatterCancerRun7postBo_G4_04 HCC 2nd Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                      • 20150618_MatterCancerRun7postBo_G4_04 HCC 2nd Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                        • 20150618_MatterCancerRun7postBo_G4_04 HCC 2nd Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                        • 20150618_MatterCancerRun7postBo_G4_04 HCC 2nd Biopsy patient.id: 29; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                      Source metadata
                                                                                                                                                                                      Source name
                                                                                                                                                                                      HCC 2nd Biopsy
                                                                                                                                                                                      Characteristics
                                                                                                                                                                                      patient.id: 29; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                      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: GSM3208045
                                                                                                                                                                                      sample_title: 20150618_MatterCancerRun7postBo_G4_04
                                                                                                                                                                                      source_name: HCC 2nd Biopsy
                                                                                                                                                                                      characteristics: patient.id: 29; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                      GSM3208046

                                                                                                                                                                                      Uncertain

                                                                                                                                                                                      20150527_MatterCancerRun1_A7_07

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

                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                            • 20150527_MatterCancerRun1_A7_07 HCC 1st Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                            • 20150527_MatterCancerRun1_A7_07 HCC 1st Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                              • 20150527_MatterCancerRun1_A7_07 HCC 1st Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                              • 20150527_MatterCancerRun1_A7_07 HCC 1st Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                            Source metadata
                                                                                                                                                                                            Source name
                                                                                                                                                                                            HCC 1st Biopsy
                                                                                                                                                                                            Characteristics
                                                                                                                                                                                            patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                            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: GSM3208046
                                                                                                                                                                                            sample_title: 20150527_MatterCancerRun1_A7_07
                                                                                                                                                                                            source_name: HCC 1st Biopsy
                                                                                                                                                                                            characteristics: patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                            GSM3208047

                                                                                                                                                                                            Uncertain

                                                                                                                                                                                            20150527_MatterCancerRun1_A8_08

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

                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                  • 20150527_MatterCancerRun1_A8_08 HCC 2nd Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                  • 20150527_MatterCancerRun1_A8_08 HCC 2nd Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                    • 20150527_MatterCancerRun1_A8_08 HCC 2nd Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                    • 20150527_MatterCancerRun1_A8_08 HCC 2nd Biopsy patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                  Source name
                                                                                                                                                                                                  HCC 2nd Biopsy
                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                  patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                  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: GSM3208047
                                                                                                                                                                                                  sample_title: 20150527_MatterCancerRun1_A8_08
                                                                                                                                                                                                  source_name: HCC 2nd Biopsy
                                                                                                                                                                                                  characteristics: patient.id: 33; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                  GSM3208048

                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                  20150527_MatterCancerRun1_A9_09

                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                        • 20150527_MatterCancerRun1_A9_09 Tumor-free 1st Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE;...
                                                                                                                                                                                                        • 20150527_MatterCancerRun1_A9_09 Tumor-free 1st Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE;...
                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                          • 20150527_MatterCancerRun1_A9_09 Tumor-free 1st Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE;...
                                                                                                                                                                                                          • 20150527_MatterCancerRun1_A9_09 Tumor-free 1st Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE;...
                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                        Source name
                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                        patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                        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: GSM3208048
                                                                                                                                                                                                        sample_title: 20150527_MatterCancerRun1_A9_09
                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                        characteristics: patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                        GSM3208049

                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                        20150527_MatterCancerRun1_A10_10

                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                              • 20150527_MatterCancerRun1_A10_10 Tumor-free 2nd Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                              • 20150527_MatterCancerRun1_A10_10 Tumor-free 2nd Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                • 20150527_MatterCancerRun1_A10_10 Tumor-free 2nd Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                • 20150527_MatterCancerRun1_A10_10 Tumor-free 2nd Biopsy patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                              Source name
                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                              patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                              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: GSM3208049
                                                                                                                                                                                                              sample_title: 20150527_MatterCancerRun1_A10_10
                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                              characteristics: patient.id: 34; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                              GSM3208050

                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                              20150527_MatterCancerRun1_A11_11

                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                    • 20150527_MatterCancerRun1_A11_11 Tumor-free 1st Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                    • 20150527_MatterCancerRun1_A11_11 Tumor-free 1st Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                      • 20150527_MatterCancerRun1_A11_11 Tumor-free 1st Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                      • 20150527_MatterCancerRun1_A11_11 Tumor-free 1st Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                    Tumor-free 1st Biopsy
                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                    patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                    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: GSM3208050
                                                                                                                                                                                                                    sample_title: 20150527_MatterCancerRun1_A11_11
                                                                                                                                                                                                                    source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                    characteristics: patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                    GSM3208051

                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                    20150527_MatterCancerRun1_A12_12

                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                          • 20150527_MatterCancerRun1_A12_12 Tumor-free 2nd Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                          • 20150527_MatterCancerRun1_A12_12 Tumor-free 2nd Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                            • 20150527_MatterCancerRun1_A12_12 Tumor-free 2nd Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                            • 20150527_MatterCancerRun1_A12_12 Tumor-free 2nd Biopsy patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                          Tumor-free 2nd Biopsy
                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                          patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                          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: GSM3208051
                                                                                                                                                                                                                          sample_title: 20150527_MatterCancerRun1_A12_12
                                                                                                                                                                                                                          source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                          characteristics: patient.id: 36; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                          GSM3208052

                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                          20150527_MatterCancerRun2_B7_07

                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                • 20150527_MatterCancerRun2_B7_07 Tumor-free 1st Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                • 20150527_MatterCancerRun2_B7_07 Tumor-free 1st Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                  • 20150527_MatterCancerRun2_B7_07 Tumor-free 1st Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                  • 20150527_MatterCancerRun2_B7_07 Tumor-free 1st Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                Tumor-free 1st Biopsy
                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                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: GSM3208052
                                                                                                                                                                                                                                sample_title: 20150527_MatterCancerRun2_B7_07
                                                                                                                                                                                                                                source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                characteristics: patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                GSM3208053

                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                20150527_MatterCancerRun2_B8_08

                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                      • 20150527_MatterCancerRun2_B8_08 Tumor-free 2nd Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 49; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                      • 20150527_MatterCancerRun2_B8_08 Tumor-free 2nd Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 49; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                        • 20150527_MatterCancerRun2_B8_08 Tumor-free 2nd Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 49; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                        • 20150527_MatterCancerRun2_B8_08 Tumor-free 2nd Biopsy patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 49; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                      Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                      patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 49; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                      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: GSM3208053
                                                                                                                                                                                                                                      sample_title: 20150527_MatterCancerRun2_B8_08
                                                                                                                                                                                                                                      source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                      characteristics: patient.id: 37; tissue: Liver tissue; fibrosis stage: F4; age: 49; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                      GSM3208054

                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                      20150527_MatterCancerRun2_B11_11

                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                            • 20150527_MatterCancerRun2_B11_11 Tumor-free 1st Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                            • 20150527_MatterCancerRun2_B11_11 Tumor-free 1st Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                              • 20150527_MatterCancerRun2_B11_11 Tumor-free 1st Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                              • 20150527_MatterCancerRun2_B11_11 Tumor-free 1st Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                            Tumor-free 1st Biopsy
                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                            patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                            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: GSM3208054
                                                                                                                                                                                                                                            sample_title: 20150527_MatterCancerRun2_B11_11
                                                                                                                                                                                                                                            source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                            characteristics: patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                            GSM3208055

                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                            20150527_MatterCancerRun2_B12_12

                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                  • 20150527_MatterCancerRun2_B12_12 Tumor-free 2nd Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                  • 20150527_MatterCancerRun2_B12_12 Tumor-free 2nd Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                    • 20150527_MatterCancerRun2_B12_12 Tumor-free 2nd Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                    • 20150527_MatterCancerRun2_B12_12 Tumor-free 2nd Biopsy patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                  Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                  patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                  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: GSM3208055
                                                                                                                                                                                                                                                  sample_title: 20150527_MatterCancerRun2_B12_12
                                                                                                                                                                                                                                                  source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                  characteristics: patient.id: 39; tissue: Liver tissue; fibrosis stage: F4; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                  GSM3208056

                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                  20150528_MatterCancerRun3_C7_07

                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                        • 20150528_MatterCancerRun3_C7_07 Tumor-free 1st Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F4; age: 42; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                        • 20150528_MatterCancerRun3_C7_07 Tumor-free 1st Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F4; age: 42; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                          • 20150528_MatterCancerRun3_C7_07 Tumor-free 1st Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F4; age: 42; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                          • 20150528_MatterCancerRun3_C7_07 Tumor-free 1st Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F4; age: 42; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                        patient.id: 40; tissue: Liver tissue; fibrosis stage: F4; age: 42; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                        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: GSM3208056
                                                                                                                                                                                                                                                        sample_title: 20150528_MatterCancerRun3_C7_07
                                                                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                        characteristics: patient.id: 40; tissue: Liver tissue; fibrosis stage: F4; age: 42; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                        GSM3208057

                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                        20150528_MatterCancerRun3_C8_08

                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                              • 20150528_MatterCancerRun3_C8_08 Tumor-free 2nd Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F2; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                              • 20150528_MatterCancerRun3_C8_08 Tumor-free 2nd Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F2; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                • 20150528_MatterCancerRun3_C8_08 Tumor-free 2nd Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F2; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                • 20150528_MatterCancerRun3_C8_08 Tumor-free 2nd Biopsy patient.id: 40; tissue: Liver tissue; fibrosis stage: F2; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                              patient.id: 40; tissue: Liver tissue; fibrosis stage: F2; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                              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: GSM3208057
                                                                                                                                                                                                                                                              sample_title: 20150528_MatterCancerRun3_C8_08
                                                                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                              characteristics: patient.id: 40; tissue: Liver tissue; fibrosis stage: F2; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                              GSM3208058

                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                              20150528_MatterCancerRun3_C9_09

                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                    • 20150528_MatterCancerRun3_C9_09 Tumor-free 1st Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 50; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                    • 20150528_MatterCancerRun3_C9_09 Tumor-free 1st Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 50; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                      • 20150528_MatterCancerRun3_C9_09 Tumor-free 1st Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 50; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                      • 20150528_MatterCancerRun3_C9_09 Tumor-free 1st Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 50; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                    Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                    patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 50; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                    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: GSM3208058
                                                                                                                                                                                                                                                                    sample_title: 20150528_MatterCancerRun3_C9_09
                                                                                                                                                                                                                                                                    source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                    characteristics: patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 50; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                    GSM3208059

                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                    20150528_MatterCancerRun3_C10_10

                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                          • 20150528_MatterCancerRun3_C10_10 Tumor-free 2nd Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                          • 20150528_MatterCancerRun3_C10_10 Tumor-free 2nd Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                            • 20150528_MatterCancerRun3_C10_10 Tumor-free 2nd Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                            • 20150528_MatterCancerRun3_C10_10 Tumor-free 2nd Biopsy patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                          Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                          patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                          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: GSM3208059
                                                                                                                                                                                                                                                                          sample_title: 20150528_MatterCancerRun3_C10_10
                                                                                                                                                                                                                                                                          source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                          characteristics: patient.id: 41; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                          GSM3208060

                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                          20150528_MatterCancerRun3_C11_11

                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                • 20150528_MatterCancerRun3_C11_11 Tumor-free 1st Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                • 20150528_MatterCancerRun3_C11_11 Tumor-free 1st Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                  • 20150528_MatterCancerRun3_C11_11 Tumor-free 1st Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                  • 20150528_MatterCancerRun3_C11_11 Tumor-free 1st Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                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: GSM3208060
                                                                                                                                                                                                                                                                                sample_title: 20150528_MatterCancerRun3_C11_11
                                                                                                                                                                                                                                                                                source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                characteristics: patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 51; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                GSM3208061

                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                20150528_MatterCancerRun3_C12_12

                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                      • 20150528_MatterCancerRun3_C12_12 Tumor-free 2nd Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 59; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                      • 20150528_MatterCancerRun3_C12_12 Tumor-free 2nd Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 59; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                        • 20150528_MatterCancerRun3_C12_12 Tumor-free 2nd Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 59; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                        • 20150528_MatterCancerRun3_C12_12 Tumor-free 2nd Biopsy patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 59; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                      Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                      patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 59; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                      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: GSM3208061
                                                                                                                                                                                                                                                                                      sample_title: 20150528_MatterCancerRun3_C12_12
                                                                                                                                                                                                                                                                                      source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                      characteristics: patient.id: 43; tissue: Liver tissue; fibrosis stage: F4; age: 59; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                      GSM3208062

                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                      20150603_MatterCancerRun6_F1_01

                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                            • 20150603_MatterCancerRun6_F1_01 Tumor-free 1st Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                            • 20150603_MatterCancerRun6_F1_01 Tumor-free 1st Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                              • 20150603_MatterCancerRun6_F1_01 Tumor-free 1st Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                              • 20150603_MatterCancerRun6_F1_01 Tumor-free 1st Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                            Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                            patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                            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: GSM3208062
                                                                                                                                                                                                                                                                                            sample_title: 20150603_MatterCancerRun6_F1_01
                                                                                                                                                                                                                                                                                            source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                            characteristics: patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                            GSM3208063

                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                            20150603_MatterCancerRun6_F2_02

                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                  • 20150603_MatterCancerRun6_F2_02 Tumor-free 2nd Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 68; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                  • 20150603_MatterCancerRun6_F2_02 Tumor-free 2nd Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 68; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                    • 20150603_MatterCancerRun6_F2_02 Tumor-free 2nd Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 68; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                    • 20150603_MatterCancerRun6_F2_02 Tumor-free 2nd Biopsy patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 68; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                  Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                  patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 68; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                  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: GSM3208063
                                                                                                                                                                                                                                                                                                  sample_title: 20150603_MatterCancerRun6_F2_02
                                                                                                                                                                                                                                                                                                  source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 45; tissue: Liver tissue; fibrosis stage: F4; age: 68; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                  GSM3208064

                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                  20150603_MatterCancerRun6_F3_03

                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                        • 20150603_MatterCancerRun6_F3_03 Tumor-free 1st Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                        • 20150603_MatterCancerRun6_F3_03 Tumor-free 1st Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                          • 20150603_MatterCancerRun6_F3_03 Tumor-free 1st Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                          • 20150603_MatterCancerRun6_F3_03 Tumor-free 1st Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                        patient.id: 46; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                        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: GSM3208064
                                                                                                                                                                                                                                                                                                        sample_title: 20150603_MatterCancerRun6_F3_03
                                                                                                                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 46; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                        GSM3208065

                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                        20150603_MatterCancerRun6_F4_04

                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                              • 20150603_MatterCancerRun6_F4_04 Tumor-free 2nd Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F2; age: 49; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                              • 20150603_MatterCancerRun6_F4_04 Tumor-free 2nd Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F2; age: 49; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                • 20150603_MatterCancerRun6_F4_04 Tumor-free 2nd Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F2; age: 49; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                                • 20150603_MatterCancerRun6_F4_04 Tumor-free 2nd Biopsy patient.id: 46; tissue: Liver tissue; fibrosis stage: F2; age: 49; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                              patient.id: 46; tissue: Liver tissue; fibrosis stage: F2; age: 49; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                              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: GSM3208065
                                                                                                                                                                                                                                                                                                              sample_title: 20150603_MatterCancerRun6_F4_04
                                                                                                                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 46; tissue: Liver tissue; fibrosis stage: F2; age: 49; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                              GSM3208066

                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                              20150603_MatterCancerRun6_F11_11

                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                    • 20150603_MatterCancerRun6_F11_11 Tumor-free 1st Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                    • 20150603_MatterCancerRun6_F11_11 Tumor-free 1st Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                      • 20150603_MatterCancerRun6_F11_11 Tumor-free 1st Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                      • 20150603_MatterCancerRun6_F11_11 Tumor-free 1st Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                    Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                    patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                    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: GSM3208066
                                                                                                                                                                                                                                                                                                                    sample_title: 20150603_MatterCancerRun6_F11_11
                                                                                                                                                                                                                                                                                                                    source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                    characteristics: patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                    GSM3208067

                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                    20150603_MatterCancerRun6_F12_12

                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                          • 20150603_MatterCancerRun6_F12_12 Tumor-free 2nd Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                          • 20150603_MatterCancerRun6_F12_12 Tumor-free 2nd Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                            • 20150603_MatterCancerRun6_F12_12 Tumor-free 2nd Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                            • 20150603_MatterCancerRun6_F12_12 Tumor-free 2nd Biopsy patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                          Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                          patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                          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: GSM3208067
                                                                                                                                                                                                                                                                                                                          sample_title: 20150603_MatterCancerRun6_F12_12
                                                                                                                                                                                                                                                                                                                          source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                          characteristics: patient.id: 48; tissue: Liver tissue; fibrosis stage: F4; age: 52; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                          GSM3208068

                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                          20150618_MatterCancerRun7postBo_G7_07

                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                • 20150618_MatterCancerRun7postBo_G7_07 Tumor-free 1st Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                • 20150618_MatterCancerRun7postBo_G7_07 Tumor-free 1st Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                  • 20150618_MatterCancerRun7postBo_G7_07 Tumor-free 1st Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                  • 20150618_MatterCancerRun7postBo_G7_07 Tumor-free 1st Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                patient.id: 49; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                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: GSM3208068
                                                                                                                                                                                                                                                                                                                                sample_title: 20150618_MatterCancerRun7postBo_G7_07
                                                                                                                                                                                                                                                                                                                                source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                characteristics: patient.id: 49; tissue: Liver tissue; fibrosis stage: F4; age: 43; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                GSM3208069

                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                20150618_MatterCancerRun7postBo_G8_08

                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                      • 20150618_MatterCancerRun7postBo_G8_08 Tumor-free 2nd Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                      • 20150618_MatterCancerRun7postBo_G8_08 Tumor-free 2nd Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                        • 20150618_MatterCancerRun7postBo_G8_08 Tumor-free 2nd Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                        • 20150618_MatterCancerRun7postBo_G8_08 Tumor-free 2nd Biopsy patient.id: 49; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: ...
                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                      Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                      patient.id: 49; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                      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: GSM3208069
                                                                                                                                                                                                                                                                                                                                      sample_title: 20150618_MatterCancerRun7postBo_G8_08
                                                                                                                                                                                                                                                                                                                                      source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                      characteristics: patient.id: 49; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                      GSM3208070

                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                      20150618_MatterCancerRun8postBo_H9_09

                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                            • 20150618_MatterCancerRun8postBo_H9_09 Tumor-free 1st Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F4; age: 39; liver disease: Alcohol: FALSE; liver disease: HCV:...
                                                                                                                                                                                                                                                                                                                                            • 20150618_MatterCancerRun8postBo_H9_09 Tumor-free 1st Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F4; age: 39; liver disease: Alcohol: FALSE; liver disease: HCV:...
                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                              • 20150618_MatterCancerRun8postBo_H9_09 Tumor-free 1st Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F4; age: 39; liver disease: Alcohol: FALSE; liver disease: HCV:...
                                                                                                                                                                                                                                                                                                                                              • 20150618_MatterCancerRun8postBo_H9_09 Tumor-free 1st Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F4; age: 39; liver disease: Alcohol: FALSE; liver disease: HCV:...
                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                            Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                            patient.id: 53; tissue: Liver tissue; fibrosis stage: F4; age: 39; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                            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: GSM3208070
                                                                                                                                                                                                                                                                                                                                            sample_title: 20150618_MatterCancerRun8postBo_H9_09
                                                                                                                                                                                                                                                                                                                                            source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                            characteristics: patient.id: 53; tissue: Liver tissue; fibrosis stage: F4; age: 39; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                            GSM3208071

                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                            20150618_MatterCancerRun8postBo_H10_10

                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                  • 20150618_MatterCancerRun8postBo_H10_10 Tumor-free 2nd Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F1; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV...
                                                                                                                                                                                                                                                                                                                                                  • 20150618_MatterCancerRun8postBo_H10_10 Tumor-free 2nd Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F1; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV...
                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                    • 20150618_MatterCancerRun8postBo_H10_10 Tumor-free 2nd Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F1; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV...
                                                                                                                                                                                                                                                                                                                                                    • 20150618_MatterCancerRun8postBo_H10_10 Tumor-free 2nd Biopsy patient.id: 53; tissue: Liver tissue; fibrosis stage: F1; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV...
                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                  Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                  patient.id: 53; tissue: Liver tissue; fibrosis stage: F1; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                  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: GSM3208071
                                                                                                                                                                                                                                                                                                                                                  sample_title: 20150618_MatterCancerRun8postBo_H10_10
                                                                                                                                                                                                                                                                                                                                                  source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 53; tissue: Liver tissue; fibrosis stage: F1; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                  GSM3208072

                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                  20150623_MatterCancerRun9_I9_09

                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                        • 20150623_MatterCancerRun9_I9_09 Tumor-free 1st Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F4; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                                                                        • 20150623_MatterCancerRun9_I9_09 Tumor-free 1st Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F4; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                          • 20150623_MatterCancerRun9_I9_09 Tumor-free 1st Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F4; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                                                                          • 20150623_MatterCancerRun9_I9_09 Tumor-free 1st Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F4; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; ...
                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                        patient.id: 56; tissue: Liver tissue; fibrosis stage: F4; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                        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: GSM3208072
                                                                                                                                                                                                                                                                                                                                                        sample_title: 20150623_MatterCancerRun9_I9_09
                                                                                                                                                                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 56; tissue: Liver tissue; fibrosis stage: F4; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                        GSM3208073

                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                        20150623_MatterCancerRun9_I10_10

                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                              • 20150623_MatterCancerRun9_I10_10 Tumor-free 2nd Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F2; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                              • 20150623_MatterCancerRun9_I10_10 Tumor-free 2nd Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F2; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                • 20150623_MatterCancerRun9_I10_10 Tumor-free 2nd Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F2; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                • 20150623_MatterCancerRun9_I10_10 Tumor-free 2nd Biopsy patient.id: 56; tissue: Liver tissue; fibrosis stage: F2; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                              patient.id: 56; tissue: Liver tissue; fibrosis stage: F2; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                              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: GSM3208073
                                                                                                                                                                                                                                                                                                                                                              sample_title: 20150623_MatterCancerRun9_I10_10
                                                                                                                                                                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 56; tissue: Liver tissue; fibrosis stage: F2; age: 56; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                              GSM3208074

                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                              20150623_MatterCancerRun9_I11_11

                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                    • 20150623_MatterCancerRun9_I11_11 Tumor-free 1st Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                    • 20150623_MatterCancerRun9_I11_11 Tumor-free 1st Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                      • 20150623_MatterCancerRun9_I11_11 Tumor-free 1st Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                      • 20150623_MatterCancerRun9_I11_11 Tumor-free 1st Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                    Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                    patient.id: 57; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                    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: GSM3208074
                                                                                                                                                                                                                                                                                                                                                                    sample_title: 20150623_MatterCancerRun9_I11_11
                                                                                                                                                                                                                                                                                                                                                                    source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                    characteristics: patient.id: 57; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                    GSM3208075

                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                    20150623_MatterCancerRun9_I12_12

                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                          • 20150623_MatterCancerRun9_I12_12 Tumor-free 2nd Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                          • 20150623_MatterCancerRun9_I12_12 Tumor-free 2nd Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                            • 20150623_MatterCancerRun9_I12_12 Tumor-free 2nd Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                            • 20150623_MatterCancerRun9_I12_12 Tumor-free 2nd Biopsy patient.id: 57; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                          Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                          patient.id: 57; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                          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: GSM3208075
                                                                                                                                                                                                                                                                                                                                                                          sample_title: 20150623_MatterCancerRun9_I12_12
                                                                                                                                                                                                                                                                                                                                                                          source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                          characteristics: patient.id: 57; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                          GSM3208076

                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                          20150623_MatterCancerRun10_L9_09

                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                • 20150623_MatterCancerRun10_L9_09 Tumor-free 1st Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                • 20150623_MatterCancerRun10_L9_09 Tumor-free 1st Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                  • 20150623_MatterCancerRun10_L9_09 Tumor-free 1st Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                  • 20150623_MatterCancerRun10_L9_09 Tumor-free 1st Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                patient.id: 59; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                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: GSM3208076
                                                                                                                                                                                                                                                                                                                                                                                sample_title: 20150623_MatterCancerRun10_L9_09
                                                                                                                                                                                                                                                                                                                                                                                source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                characteristics: patient.id: 59; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                GSM3208077

                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                20150623_MatterCancerRun10_L10_10

                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                      • 20150623_MatterCancerRun10_L10_10 Tumor-free 2nd Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F2; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                      • 20150623_MatterCancerRun10_L10_10 Tumor-free 2nd Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F2; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                        • 20150623_MatterCancerRun10_L10_10 Tumor-free 2nd Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F2; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                        • 20150623_MatterCancerRun10_L10_10 Tumor-free 2nd Biopsy patient.id: 59; tissue: Liver tissue; fibrosis stage: F2; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                      Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                      patient.id: 59; tissue: Liver tissue; fibrosis stage: F2; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                      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: GSM3208077
                                                                                                                                                                                                                                                                                                                                                                                      sample_title: 20150623_MatterCancerRun10_L10_10
                                                                                                                                                                                                                                                                                                                                                                                      source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                      characteristics: patient.id: 59; tissue: Liver tissue; fibrosis stage: F2; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                      GSM3208078

                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                      20150623_MatterCancerRun10_L11_11

                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                            • 20150623_MatterCancerRun10_L11_11 Tumor-free 1st Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                            • 20150623_MatterCancerRun10_L11_11 Tumor-free 1st Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                              • 20150623_MatterCancerRun10_L11_11 Tumor-free 1st Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                              • 20150623_MatterCancerRun10_L11_11 Tumor-free 1st Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                            Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                            patient.id: 60; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                            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: GSM3208078
                                                                                                                                                                                                                                                                                                                                                                                            sample_title: 20150623_MatterCancerRun10_L11_11
                                                                                                                                                                                                                                                                                                                                                                                            source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                            characteristics: patient.id: 60; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                            GSM3208079

                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                            20150623_MatterCancerRun10_L12_12

                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                  • 20150623_MatterCancerRun10_L12_12 Tumor-free 2nd Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F1; age: 72; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                  • 20150623_MatterCancerRun10_L12_12 Tumor-free 2nd Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F1; age: 72; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                    • 20150623_MatterCancerRun10_L12_12 Tumor-free 2nd Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F1; age: 72; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                    • 20150623_MatterCancerRun10_L12_12 Tumor-free 2nd Biopsy patient.id: 60; tissue: Liver tissue; fibrosis stage: F1; age: 72; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                  Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                  patient.id: 60; tissue: Liver tissue; fibrosis stage: F1; age: 72; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                  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: GSM3208079
                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: 20150623_MatterCancerRun10_L12_12
                                                                                                                                                                                                                                                                                                                                                                                                  source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 60; tissue: Liver tissue; fibrosis stage: F1; age: 72; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                  GSM3208080

                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                  20150624_MatterCancerRun11_M7_07

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

                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun11_M7_07 HCC 1st Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun11_M7_07 HCC 1st Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun11_M7_07 HCC 1st Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun11_M7_07 HCC 1st Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                        HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                        patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                        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: GSM3208080
                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: 20150624_MatterCancerRun11_M7_07
                                                                                                                                                                                                                                                                                                                                                                                                        source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                        GSM3208081

                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                        20150624_MatterCancerRun11_M8_08

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

                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun11_M8_08 HCC 2nd Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun11_M8_08 HCC 2nd Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun11_M8_08 HCC 2nd Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun11_M8_08 HCC 2nd Biopsy patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                              HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                              patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                              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: GSM3208081
                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: 20150624_MatterCancerRun11_M8_08
                                                                                                                                                                                                                                                                                                                                                                                                              source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 61; tissue: Liver tissue; fibrosis stage: F4; age: 65; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                              GSM3208082

                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                              20150624_MatterCancerRun11_M9_09

                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun11_M9_09 Tumor-free 1st Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun11_M9_09 Tumor-free 1st Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun11_M9_09 Tumor-free 1st Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun11_M9_09 Tumor-free 1st Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                    Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                    patient.id: 62; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                    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: GSM3208082
                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: 20150624_MatterCancerRun11_M9_09
                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: patient.id: 62; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                    GSM3208083

                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                    20150624_MatterCancerRun11_M10_10

                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun11_M10_10 Tumor-free 2nd Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun11_M10_10 Tumor-free 2nd Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun11_M10_10 Tumor-free 2nd Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun11_M10_10 Tumor-free 2nd Biopsy patient.id: 62; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                          Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                          patient.id: 62; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                          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: GSM3208083
                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: 20150624_MatterCancerRun11_M10_10
                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: patient.id: 62; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                          GSM3208084

                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                          20150624_MatterCancerRun11_M11_11

                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun11_M11_11 Tumor-free 1st Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun11_M11_11 Tumor-free 1st Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun11_M11_11 Tumor-free 1st Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun11_M11_11 Tumor-free 1st Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                patient.id: 63; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                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: GSM3208084
                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: 20150624_MatterCancerRun11_M11_11
                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: patient.id: 63; tissue: Liver tissue; fibrosis stage: F4; age: 47; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                GSM3208085

                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                20150624_MatterCancerRun11_M12_12

                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun11_M12_12 Tumor-free 2nd Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F1; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun11_M12_12 Tumor-free 2nd Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F1; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun11_M12_12 Tumor-free 2nd Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F1; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun11_M12_12 Tumor-free 2nd Biopsy patient.id: 63; tissue: Liver tissue; fibrosis stage: F1; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                      Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                      patient.id: 63; tissue: Liver tissue; fibrosis stage: F1; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                      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: GSM3208085
                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: 20150624_MatterCancerRun11_M12_12
                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: patient.id: 63; tissue: Liver tissue; fibrosis stage: F1; age: 60; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM3208086

                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                      20150624_MatterCancerRun12_N1_01

                                                                                                                                                                                                                                                                                                                                                                                                                                      Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun12_N1_01 Tumor-free 1st Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun12_N1_01 Tumor-free 1st Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun12_N1_01 Tumor-free 1st Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun12_N1_01 Tumor-free 1st Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                            Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                            patient.id: 64; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                            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: GSM3208086
                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: 20150624_MatterCancerRun12_N1_01
                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: patient.id: 64; tissue: Liver tissue; fibrosis stage: F4; age: 38; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM3208087

                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                            20150624_MatterCancerRun12_N2_02

                                                                                                                                                                                                                                                                                                                                                                                                                                            Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun12_N2_02 Tumor-free 2nd Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun12_N2_02 Tumor-free 2nd Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun12_N2_02 Tumor-free 2nd Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun12_N2_02 Tumor-free 2nd Biopsy patient.id: 64; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                  Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                  patient.id: 64; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                  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: GSM3208087
                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: 20150624_MatterCancerRun12_N2_02
                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 64; tissue: Liver tissue; fibrosis stage: F2; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM3208088

                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                  20150624_MatterCancerRun12_N5_05

                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun12_N5_05 Tumor-free 1st Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun12_N5_05 Tumor-free 1st Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun12_N5_05 Tumor-free 1st Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun12_N5_05 Tumor-free 1st Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                        patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                        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: GSM3208088
                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: 20150624_MatterCancerRun12_N5_05
                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 56; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM3208089

                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                        20150624_MatterCancerRun12_N6_06

                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun12_N6_06 Tumor-free 2nd Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun12_N6_06 Tumor-free 2nd Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun12_N6_06 Tumor-free 2nd Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun12_N6_06 Tumor-free 2nd Biopsy patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                              patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                              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: GSM3208089
                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: 20150624_MatterCancerRun12_N6_06
                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 66; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM3208090

                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                              20150624_MatterCancerRun12_N7_07

                                                                                                                                                                                                                                                                                                                                                                                                                                                              Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun12_N7_07 Tumor-free 1st Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun12_N7_07 Tumor-free 1st Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun12_N7_07 Tumor-free 1st Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun12_N7_07 Tumor-free 1st Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    patient.id: 67; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    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: GSM3208090
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: 20150624_MatterCancerRun12_N7_07
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: patient.id: 67; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM3208091

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    20150624_MatterCancerRun12_N8_08

                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun12_N8_08 Tumor-free 2nd Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F2; age: 70; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun12_N8_08 Tumor-free 2nd Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F2; age: 70; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun12_N8_08 Tumor-free 2nd Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F2; age: 70; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun12_N8_08 Tumor-free 2nd Biopsy patient.id: 67; tissue: Liver tissue; fibrosis stage: F2; age: 70; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          patient.id: 67; tissue: Liver tissue; fibrosis stage: F2; age: 70; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          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: GSM3208091
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: 20150624_MatterCancerRun12_N8_08
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: patient.id: 67; tissue: Liver tissue; fibrosis stage: F2; age: 70; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM3208092

                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                          20150624_MatterCancerRun12_N9_09

                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun12_N9_09 Tumor-free 1st Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun12_N9_09 Tumor-free 1st Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun12_N9_09 Tumor-free 1st Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun12_N9_09 Tumor-free 1st Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE;...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                patient.id: 68; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                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: GSM3208092
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: 20150624_MatterCancerRun12_N9_09
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: patient.id: 68; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM3208093

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                20150624_MatterCancerRun12_N10_10

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun12_N10_10 Tumor-free 2nd Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150624_MatterCancerRun12_N10_10 Tumor-free 2nd Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun12_N10_10 Tumor-free 2nd Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun12_N10_10 Tumor-free 2nd Biopsy patient.id: 68; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      patient.id: 68; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      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: GSM3208093
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: 20150624_MatterCancerRun12_N10_10
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: patient.id: 68; tissue: Liver tissue; fibrosis stage: F3; age: 48; liver disease: Alcohol: TRUE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM3208094

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      20150623_MatterCancerRun9_I1_01

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150623_MatterCancerRun9_I1_01 HCC 1st Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150623_MatterCancerRun9_I1_01 HCC 1st Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150623_MatterCancerRun9_I1_01 HCC 1st Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150623_MatterCancerRun9_I1_01 HCC 1st Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            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: GSM3208094
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: 20150623_MatterCancerRun9_I1_01
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 61; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM3208095

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            20150623_MatterCancerRun9_I2_02

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150623_MatterCancerRun9_I2_02 HCC 2nd Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150623_MatterCancerRun9_I2_02 HCC 2nd Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150623_MatterCancerRun9_I2_02 HCC 2nd Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150623_MatterCancerRun9_I2_02 HCC 2nd Biopsy patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver ...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  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: GSM3208095
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: 20150623_MatterCancerRun9_I2_02
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 81; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM3208096

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  20150625_MatterCancerRun13_O3_03

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150625_MatterCancerRun13_O3_03 Tumor-free 1st Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150625_MatterCancerRun13_O3_03 Tumor-free 1st Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150625_MatterCancerRun13_O3_03 Tumor-free 1st Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150625_MatterCancerRun13_O3_03 Tumor-free 1st Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        patient.id: 82; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        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: GSM3208096
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: 20150625_MatterCancerRun13_O3_03
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 82; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM3208097

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        20150625_MatterCancerRun13_O4_04

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150625_MatterCancerRun13_O4_04 Tumor-free 2nd Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150625_MatterCancerRun13_O4_04 Tumor-free 2nd Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150625_MatterCancerRun13_O4_04 Tumor-free 2nd Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150625_MatterCancerRun13_O4_04 Tumor-free 2nd Biopsy patient.id: 82; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              patient.id: 82; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              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: GSM3208097
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: 20150625_MatterCancerRun13_O4_04
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 82; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM3208098

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              20150625_MatterCancerRun114_P9_09

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150625_MatterCancerRun114_P9_09 HCC 1st Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F3; age: 58; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; live...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150625_MatterCancerRun114_P9_09 HCC 1st Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F3; age: 58; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; live...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150625_MatterCancerRun114_P9_09 HCC 1st Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F3; age: 58; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; live...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150625_MatterCancerRun114_P9_09 HCC 1st Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F3; age: 58; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; live...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    patient.id: 86; tissue: Liver tissue; fibrosis stage: F3; age: 58; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    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: GSM3208098
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: 20150625_MatterCancerRun114_P9_09
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: patient.id: 86; tissue: Liver tissue; fibrosis stage: F3; age: 58; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM3208099

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    20150625_MatterCancerRun114_P10_10

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150625_MatterCancerRun114_P10_10 HCC 2nd Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150625_MatterCancerRun114_P10_10 HCC 2nd Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150625_MatterCancerRun114_P10_10 HCC 2nd Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150625_MatterCancerRun114_P10_10 HCC 2nd Biopsy patient.id: 86; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          patient.id: 86; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          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: GSM3208099
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: 20150625_MatterCancerRun114_P10_10
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: patient.id: 86; tissue: Liver tissue; fibrosis stage: F4; age: 71; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM3208100

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          20150625_MatterCancerRun114_P11_11

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150625_MatterCancerRun114_P11_11 HCC 1st Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150625_MatterCancerRun114_P11_11 HCC 1st Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150625_MatterCancerRun114_P11_11 HCC 1st Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150625_MatterCancerRun114_P11_11 HCC 1st Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                patient.id: 87; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                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: GSM3208100
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: 20150625_MatterCancerRun114_P11_11
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: patient.id: 87; tissue: Liver tissue; fibrosis stage: F3; age: 52; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM3208101

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                20150625_MatterCancerRun114_P12_12

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150625_MatterCancerRun114_P12_12 HCC 2nd Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150625_MatterCancerRun114_P12_12 HCC 2nd Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150625_MatterCancerRun114_P12_12 HCC 2nd Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150625_MatterCancerRun114_P12_12 HCC 2nd Biopsy patient.id: 87; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liv...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      patient.id: 87; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      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: GSM3208101
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: 20150625_MatterCancerRun114_P12_12
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: patient.id: 87; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM3208102

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      20160330_MatterCancerRun15_Q7_07

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20160330_MatterCancerRun15_Q7_07 HCC 1st Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20160330_MatterCancerRun15_Q7_07 HCC 1st Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20160330_MatterCancerRun15_Q7_07 HCC 1st Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20160330_MatterCancerRun15_Q7_07 HCC 1st Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            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: GSM3208102
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: 20160330_MatterCancerRun15_Q7_07
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 44; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM3208103

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            20160330_MatterCancerRun15_Q8_08

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20160330_MatterCancerRun15_Q8_08 HCC 2nd Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20160330_MatterCancerRun15_Q8_08 HCC 2nd Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20160330_MatterCancerRun15_Q8_08 HCC 2nd Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20160330_MatterCancerRun15_Q8_08 HCC 2nd Biopsy patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  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: GSM3208103
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: 20160330_MatterCancerRun15_Q8_08
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 91; tissue: Liver tissue; fibrosis stage: F4; age: 54; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM3208104

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  20160330_MatterCancerRun16_R3_03

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20160330_MatterCancerRun16_R3_03 HCC 1st Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20160330_MatterCancerRun16_R3_03 HCC 1st Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20160330_MatterCancerRun16_R3_03 HCC 1st Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20160330_MatterCancerRun16_R3_03 HCC 1st Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        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: GSM3208104
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: 20160330_MatterCancerRun16_R3_03
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 58; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM3208105

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        20160330_MatterCancerRun16_R4_04

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20160330_MatterCancerRun16_R4_04 HCC 2nd Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20160330_MatterCancerRun16_R4_04 HCC 2nd Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20160330_MatterCancerRun16_R4_04 HCC 2nd Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20160330_MatterCancerRun16_R4_04 HCC 2nd Biopsy patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              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: GSM3208105
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: 20160330_MatterCancerRun16_R4_04
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 95; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              GSM3208106

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              20160330_MatterCancerRun16_R8_08

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20160330_MatterCancerRun16_R8_08 HCC 1st Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F3; age: 41; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20160330_MatterCancerRun16_R8_08 HCC 1st Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F3; age: 41; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20160330_MatterCancerRun16_R8_08 HCC 1st Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F3; age: 41; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20160330_MatterCancerRun16_R8_08 HCC 1st Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F3; age: 41; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    patient.id: 97; tissue: Liver tissue; fibrosis stage: F3; age: 41; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    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: GSM3208106
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    sample_title: 20160330_MatterCancerRun16_R8_08
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    characteristics: patient.id: 97; tissue: Liver tissue; fibrosis stage: F3; age: 41; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    GSM3208107

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    20160330_MatterCancerRun16_R9_09

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20160330_MatterCancerRun16_R9_09 HCC 2nd Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20160330_MatterCancerRun16_R9_09 HCC 2nd Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20160330_MatterCancerRun16_R9_09 HCC 2nd Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20160330_MatterCancerRun16_R9_09 HCC 2nd Biopsy patient.id: 97; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          patient.id: 97; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          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: GSM3208107
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          sample_title: 20160330_MatterCancerRun16_R9_09
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          characteristics: patient.id: 97; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: FALSE; liver disease: HCV: TRUE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GSM3208108

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          20150527_MatterCancerRun1_A4_04

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150527_MatterCancerRun1_A4_04 HCC 1st Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150527_MatterCancerRun1_A4_04 HCC 1st Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150527_MatterCancerRun1_A4_04 HCC 1st Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150527_MatterCancerRun1_A4_04 HCC 1st Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                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: GSM3208108
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                sample_title: 20150527_MatterCancerRun1_A4_04
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                characteristics: patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 45; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                GSM3208109

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                20150527_MatterCancerRun1_A5_05

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150527_MatterCancerRun1_A5_05 HCC 2nd Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • 20150527_MatterCancerRun1_A5_05 HCC 2nd Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150527_MatterCancerRun1_A5_05 HCC 2nd Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150527_MatterCancerRun1_A5_05 HCC 2nd Biopsy patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver d...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      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: GSM3208109
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      sample_title: 20150527_MatterCancerRun1_A5_05
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      characteristics: patient.id: 2; tissue: Liver tissue; fibrosis stage: F4; age: 53; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GSM3208110

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      20150624_MatterCancerRun11_M1_01

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun11_M1_01 HCC 1st Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • 20150624_MatterCancerRun11_M1_01 HCC 1st Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun11_M1_01 HCC 1st Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun11_M1_01 HCC 1st Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            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: GSM3208110
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            sample_title: 20150624_MatterCancerRun11_M1_01
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            source_name: HCC 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            characteristics: patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            GSM3208111

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            20150624_MatterCancerRun11_M2_02

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

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Requirements and decision evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • organism: Homo sapiens — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • assay type: bulk RNA-seq — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • specimen category: Tissue or biopsy — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun11_M2_02 HCC 2nd Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • 20150624_MatterCancerRun11_M2_02 HCC 2nd Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun11_M2_02 HCC 2nd Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    • 20150624_MatterCancerRun11_M2_02 HCC 2nd Biopsy patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  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: GSM3208111
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  sample_title: 20150624_MatterCancerRun11_M2_02
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  source_name: HCC 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  characteristics: patient.id: 72; tissue: Liver tissue; fibrosis stage: F4; age: 66; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: TRUE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  GSM3208112

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  20150624_MatterCancerRun12_N11_11

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun12_N11_11 Tumor-free 1st Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • 20150624_MatterCancerRun12_N11_11 Tumor-free 1st Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun12_N11_11 Tumor-free 1st Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          • 20150624_MatterCancerRun12_N11_11 Tumor-free 1st Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        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: GSM3208112
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        sample_title: 20150624_MatterCancerRun12_N11_11
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        source_name: Tumor-free 1st Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        characteristics: patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 62; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        GSM3208113

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Uncertain

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        20150624_MatterCancerRun12_N12_12

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Not included: the study role or selected requirements have incomplete or conflicting evidence. organism: Homo sapiens — Insufficient evidence. assay type: bulk RNA-seq — Insufficient evidence. specimen category: Tissue or biopsy — Insufficient evidence. specimen category excludes: Biofluid — Insufficient evidence. Study role: Explicit sample label 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.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun12_N12_12 Tumor-free 2nd Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • 20150624_MatterCancerRun12_N12_12 Tumor-free 2nd Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            • excluded sample type excludes: cell line, organoid, xenograft — Meets requirement
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • Supported by the indexed evidence.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              • specimen category excludes: Biofluid — Insufficient evidence
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • The required value is not reported.
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun12_N12_12 Tumor-free 2nd Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                • 20150624_MatterCancerRun12_N12_12 Tumor-free 2nd Biopsy patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALS...
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source metadata
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Source name
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Characteristics
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              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: GSM3208113
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              sample_title: 20150624_MatterCancerRun12_N12_12
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              source_name: Tumor-free 2nd Biopsy
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              characteristics: patient.id: 79; tissue: Liver tissue; fibrosis stage: F4; age: 67; liver disease: Alcohol: TRUE; liver disease: HCV: FALSE; liver disease: HBV: FALSE; liver disease: PBC: FALSE

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Excluded samples (0)

                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              No excluded samples.