ISB-CGC Data Release Notes

September 30, 2024

New and updated PDC data for V4.3.

BigQuery tables created

• isb-cgc-bq.APOLLO_versioned.clinical_APOLLO1_pdc_V4_3

• isb-cgc-bq.BROAD_versioned.clinical_Broad_pdc_V4_3

• isb-cgc-bq.CBTN_versioned.clinical_diagnosis_pediatric_brain_cancer_pdc_V4_3

• isb-cgc-bq.CBTN_versioned.clinical_pediatric_brain_cancer_pdc_V4_3

• isb-cgc-bq.CBTN_versioned.per_sample_file_metadata_pediatric_brain_cancer_pdc_V4_3

• isb-cgc-bq.CBTN.clinical_diagnosis_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CBTN.clinical_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CBTN.per_sample_file_metadata_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC_2_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_and_confirmatory_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_other_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.clinical_diagnosis_proteogenomic_translational_research_centers_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.clinical_proteogenomic_translational_research_centers_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC_2_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC2_other_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_other_pdc_V4_3

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_V4_3

• isb-cgc-bq.GPRP_versioned.clinical_georgetown_lung_cancer_pdc_V4_3

• isb-cgc-bq.GPRP_versioned.per_sample_file_metadata_georgetown_lung_cancer_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_academia_sinica_LUAD_100_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_HBV_related_hepatocellular_carcinoma_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_human_early_onset_gastric_cancer_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_KNCC_Cancer_Proteogenomics_Group_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_NCC_iCC_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_oral_squamous_cell_carcinoma_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.clinical_PDAC_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_academia_sinica_LUAD_100_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_HBV_related_hepatocellular_carcinoma_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_human_early_onset_gastric_cancer_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_KNCC_Cancer_Proteogenomics_Group_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_NCC_iCC_pdc_V4_3

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_oral_squamous_cell_carcinoma_pdc_V4_3

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V4_3

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V4_3

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V4_3

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V4_3

• isb-cgc-bq.PDC_metadata_versioned.studies_V4_3

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies_versioned.clinical_pct_swath_kidney_pdc_V4_3

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies_versioned.per_sample_file_metadata_pct_swath_kidney_pdc_V4_3

• isb-cgc-bq.TCGA_versioned.clinical_CPTAC_TCGA_pdc_V4_3

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_CPTAC_TCGA_pdc_V4_3

BigQuery tables updated

• isb-cgc-bq.APOLLO.clinical_APOLLO1_pdc_current

• isb-cgc-bq.BROAD.clinical_Broad_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.clinical_diagnosis_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC.clinical_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC2_other_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.GPRP.clinical_georgetown_lung_cancer_pdc_current

• isb-cgc-bq.GPRP.per_sample_file_metadata_georgetown_lung_cancer_pdc_current

• isb-cgc-bq.ICPC.clinical_academia_sinica_LUAD_100_pdc_current

• isb-cgc-bq.ICPC.clinical_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.clinical_human_early_onset_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC.clinical_KNCC_Cancer_Proteogenomics_Group_pdc_current

• isb-cgc-bq.ICPC.clinical_NCC_iCC_pdc_current

• isb-cgc-bq.ICPC.clinical_oral_squamous_cell_carcinoma_pdc_current

• isb-cgc-bq.ICPC.clinical_PDAC_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_academia_sinica_LUAD_100_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_human_early_onset_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_KNCC_Cancer_Proteogenomics_Group_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_NCC_iCC_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_oral_squamous_cell_carcinoma_pdc_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies.clinical_pct_swath_kidney_pdc_current

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies.per_sample_file_metadata_pct_swath_kidney_pdc_current

• isb-cgc-bq.TCGA.clinical_CPTAC_TCGA_pdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_CPTAC_TCGA_pdc_current

August 9, 2024

New and updated GDC Legacy Case File Metadata tables.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r37_v2

BigQuery table updated

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

July 23, 2024

New and updated GDC RNA seq and Somatic Mutation tables for GDC r40.

BigQuery tables created

• isb-cgc-bq.TARGET_versioned.masked_somatic_mutation_hg38_gdc_r40

• isb-cgc-bq.CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r40

• isb-cgc-bq.TCGA_versioned.RNAseq_hg38_gdc_r40

• isb-cgc-bq.REBC_versioned.RNAseq_hg38_gdc_r40

• isb-cgc-bq.CPTAC_versioned.RNAseq_hg38_gdc_r40

BigQuery tables updated

• isb-cgc-bq.TARGET.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CPTAC.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TCGA.RNAseq_hg38_gdc_current

• isb-cgc-bq.REBC.RNAseq_hg38_gdc_current

• isb-cgc-bq.CPTAC.RNAseq_hg38_gdc_current

July 1, 2024

New and updated GDC data for r40. New and updated HTAN tables.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r40

• isb-cgc-bq.HTAN_versioned.clinical_tier1_followup_r5_v2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_followup_r4_v2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_followup_r3_v2

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.HTAN.clinical_tier1_followup_current

June 27, 2024

New and updated GDC data for r40.

BigQuery tables created

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.TRIO_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.MATCH_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.EXC_RESPONDERS_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.CDDP_EAGLE_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.APOLLO_versioned.per_sample_file_metadata_hg38_gdc_r40

• isb-cgc-bq.TARGET_versioned.clinical_follow_up_molecular_test_gdc_r40

• isb-cgc-bq.TARGET_versioned.clinical_follow_up_gdc_r40

• isb-cgc-bq.TARGET_versioned.clinical_diagnosis_treatment_gdc_r40

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r40

• isb-cgc-bq.TARGET.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.TARGET.clinical_follow_up_gdc_current

• isb-cgc-bq.TARGET.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.REBC_versioned.clinical_gdc_r40

• isb-cgc-bq.MATCH_versioned.clinical_gdc_r40

• isb-cgc-bq.HCMI_versioned.clinical_follow_up_molecular_test_gdc_r40

• isb-cgc-bq.HCMI_versioned.clinical_follow_up_gdc_r40

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_gdc_r40

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r40

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r40

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r40

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r40

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r40

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r40

BigQuery tables updated

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TRIO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MATCH.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CDDP_EAGLE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.APOLLO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.REBC.clinical_gdc_current

• isb-cgc-bq.MATCH.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_up_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnosis_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

June 24, 2024

New and updated GDC Open Somatic Mutation data for r39.

BigQuery tables created

• isb-cgc-bq.TARGET_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.TCGA_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.MP2PRT_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.CGCI_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.BEATAML1_0_versioned.masked_somatic_mutation_hg38_gdc_r39

• isb-cgc-bq.MP2PRT.masked_somatic_mutation_hg38_gdc_current

BigQuery tables updated

• isb-cgc-bq.TARGET.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TCGA.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CPTAC.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CGCI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.masked_somatic_mutation_hg38_gdc_current

June 3, 2024

Updated GDC per sample metadata for r39.

BigQuery tables created

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.MATCH_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r39_v2

BigQuery tables updated

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MATCH.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

May 09, 2024

New and updated GDC RNAseq data for r39.

BigQuery tables created

• isb-cgc-bq.APOLLO.RNAseq_hg38_gdc_current

• isb-cgc-bq.CDDP_EAGLE.RNAseq_hg38_gdc_current

• isb-cgc-bq.CGCI.RNAseq_hg38_gdc_current

• isb-cgc-bq.MP2PRT.RNAseq_hg38_gdc_current

• isb-cgc-bq.REBC.RNAseq_hg38_gdc_current

• isb-cgc-bq.APOLLO_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.CDDP_EAGLE_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.CGCI_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.CMI_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.CPTAC_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.HCMI_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.MP2PRT_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.REBC_versioned.RNAseq_hg38_gdc_r39

• isb-cgc-bq.TCGA_versioned.RNAseq_hg38_gdc_r39

BigQuery tables updated

• isb-cgc-bq.CMI.RNAseq_hg38_gdc_current

• isb-cgc-bq.CPTAC.RNAseq_hg38_gdc_current

• isb-cgc-bq.HCMI.RNAseq_hg38_gdc_current

• isb-cgc-bq.TCGA.RNAseq_hg38_gdc_current

March 29, 2024

New and updated GDC data for r39.

BigQuery tables created

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.CDDP_EAGLE_versioned.clinical_gdc_r39

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r39

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r39

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r39

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r39

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r39

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r39

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_gdc_r39

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_pathology_detail_gdc_r39

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_treatment_gdc_r39

• isb-cgc-bq.HCMI_versioned.clinical_follow_up_gdc_r39

• isb-cgc-bq.HCMI_versioned.clinical_follow_up_molecular_test_gdc_r39

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r39

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.MATCH_versioned.clinical_gdc_r39

• isb-cgc-bq.MATCH_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.MMRF_versioned.clinical_follow_up_molecular_test_gdc_r39

• isb-cgc-bq.MP2PRT_versioned.clinical_follow_up_molecular_test_gdc_r39

• isb-cgc-bq.MP2PRT_versioned.clinical_gdc_r39

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.REBC_versioned.clinical_gdc_r39

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.TCGA_versioned.clinical_gdc_r39

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r39

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r39

BigQuery tables updated

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.HCMI.clinical_diagnosis_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnosis_pathology_detail_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_up_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MATCH.clinical_gdc_current

• isb-cgc-bq.MATCH.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.MP2PRT.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.MP2PRT.clinical_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC.clinical_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.clinical_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

December 18, 2023

Updated HTAN tables.

BigQuery tables updated

• isb-cgc-bq.HTAN.scRNAseq_VUMC_VAL_DIS_NOEPI_cellxgene_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_VAL_EPI_cellxgene_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_DIS_EPI_cellxgene_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_combined_samples_current

December 12, 2023

New and updated GDC data for r38.

BigQuery tables created

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.MP2PRT_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.MATCH_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r38

• isb-cgc-bq.WCDT_versioned.clinical_gdc_r38

• isb-cgc-bq.VAREPOP_versioned.clinical_family_history_gdc_r38

• isb-cgc-bq.VAREPOP_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.VAREPOP_versioned.clinical_gdc_r38

• isb-cgc-bq.TRIO_versioned.clinical_gdc_r38

• isb-cgc-bq.TCGA_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.TCGA_versioned.clinical_gdc_r38

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r38

• isb-cgc-bq.REBC_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.REBC_versioned.clinical_gdc_r38

• isb-cgc-bq.ORGANOID_versioned.clinical_gdc_r38

• isb-cgc-bq.OHSU_versioned.clinical_gdc_r38

• isb-cgc-bq.NCICCR_versioned.clinical_gdc_r38

• isb-cgc-bq.MP2PRT_versioned.clinical_follow_up_molecular_test_gdc_r38

• isb-cgc-bq.MP2PRT_versioned.clinical_gdc_r38

• isb-cgc-bq.MMRF_versioned.clinical_follow_up_molecular_test_gdc_r38

• isb-cgc-bq.MMRF_versioned.clinical_follow_up_gdc_r38

• isb-cgc-bq.MMRF_versioned.clinical_family_history_gdc_r38

• isb-cgc-bq.MMRF_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.MMRF_versioned.clinical_gdc_r38

• isb-cgc-bq.MATCH_versioned.clinical_gdc_r38

• isb-cgc-bq.HCMI_versioned.clinical_follow_up_molecular_test_gdc_r38

• isb-cgc-bq.HCMI_versioned.clinical_follow_up_gdc_r38

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_pathology_detail_gdc_r38

• isb-cgc-bq.HCMI_versioned.clinical_diagnosis_gdc_r38

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r38

• isb-cgc-bq.GENIE_versioned.clinical_gdc_r38

• isb-cgc-bq.FM_versioned.clinical_gdc_r38

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_diagnosis_gdc_r38

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_gdc_r38

• isb-cgc-bq.CTSP_versioned.clinical_follow_up_molecular_test_gdc_r38

• isb-cgc-bq.CTSP_versioned.clinical_follow_up_gdc_r38

• isb-cgc-bq.CTSP_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.CTSP_versioned.clinical_diagnosis_gdc_r38

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r38

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r38

• isb-cgc-bq.CMI_versioned.clinical_gdc_r38

• isb-cgc-bq.CGCI_versioned.clinical_follow_up_molecular_test_gdc_r38

• isb-cgc-bq.CGCI_versioned.clinical_follow_up_gdc_r38

• isb-cgc-bq.CGCI_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.CGCI_versioned.clinical_diagnosis_pathology_detail_gdc_r38

• isb-cgc-bq.CGCI_versioned.clinical_diagnosis_gdc_r38

• isb-cgc-bq.CGCI_versioned.clinical_gdc_r38

• isb-cgc-bq.CDDP_EAGLE_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.CDDP_EAGLE_versioned.clinical_gdc_r38

• isb-cgc-bq.BEATAML1_0_versioned.clinical_gdc_r38

• isb-cgc-bq.APOLLO_versioned.clinical_follow_up_gdc_r38

• isb-cgc-bq.APOLLO_versioned.clinical_diagnosis_treatment_gdc_r38

• isb-cgc-bq.APOLLO_versioned.clinical_gdc_r38

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r38

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r38

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r38

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r38

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r38

BigQuery tables updated

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MP2PRT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MATCH.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT.clinical_gdc_current

• isb-cgc-bq.VAREPOP.clinical_family_history_gdc_current

• isb-cgc-bq.VAREPOP.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.VAREPOP.clinical_gdc_current

• isb-cgc-bq.TRIO.clinical_gdc_current

• isb-cgc-bq.TCGA.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.TCGA.clinical_gdc_current

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.REBC.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.REBC.clinical_gdc_current

• isb-cgc-bq.ORGANOID.clinical_gdc_current

• isb-cgc-bq.OHSU.clinical_gdc_current

• isb-cgc-bq.NCICCR.clinical_gdc_current

• isb-cgc-bq.MP2PRT.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.MP2PRT.clinical_gdc_current

• isb-cgc-bq.MMRF.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.MMRF.clinical_follow_up_gdc_current

• isb-cgc-bq.MMRF.clinical_family_history_gdc_current

• isb-cgc-bq.MMRF.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.MMRF.clinical_gdc_current

• isb-cgc-bq.MATCH.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_up_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnosis_pathology_detail_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnosis_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.GENIE.clinical_gdc_current

• isb-cgc-bq.FM.clinical_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.clinical_diagnosis_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.clinical_gdc_current

• isb-cgc-bq.CTSP.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.CTSP.clinical_follow_up_gdc_current

• isb-cgc-bq.CTSP.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.CTSP.clinical_diagnosis_gdc_current

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.CMI.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_up_molecular_test_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_up_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnosis_pathology_detail_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnosis_gdc_current

• isb-cgc-bq.CGCI.clinical_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_gdc_current

• isb-cgc-bq.BEATAML1_0.clinical_gdc_current

• isb-cgc-bq.APOLLO.clinical_follow_up_gdc_current

• isb-cgc-bq.APOLLO.clinical_diagnosis_treatment_gdc_current

• isb-cgc-bq.APOLLO.clinical_gdc_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

October 31, 2023

New HTAN tables.

BigQuery tables created

• isb-cgc-bq.HTAN.tissueOrOrganOfOrigin_to_wholeOrgan_mapping_current

• isb-cgc-bq.HTAN.imaging_level4_HTAPP_merfish_current

• isb-cgc-bq.HTAN.imaging_level4_Duke_mibi_current

• isb-cgc-bq.HTAN.imaging_level4_TNP_TMA_phase3_current

• isb-cgc-bq.HTAN.imaging_level4_TNP_TMA_phase1_current

• isb-cgc-bq.HTAN.imaging_level4_HMS_orion_current

• isb-cgc-bq.HTAN.id_provenance_current

• isb-cgc-bq.HTAN.schema_current

• isb-cgc-bq.HTAN.imaging_channel_metadata_current

• isb-cgc-bq.HTAN.clinical_tier1_therapy_current

• isb-cgc-bq.HTAN.scRNAseq_level4_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level4_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level3_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level2_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level1_metadata_current

• isb-cgc-bq.HTAN.clinical_tier3_brain_current

• isb-cgc-bq.HTAN.clinical_tier1_moleculartest_current

• isb-cgc-bq.HTAN.massSpectrometry_level4_metadata_current

• isb-cgc-bq.HTAN.massSpectrometry_level3_metadata_current

• isb-cgc-bq.HTAN.massSpectrometry_level1_metadata_current

• isb-cgc-bq.HTAN.clinical_tier3_lung_current

• isb-cgc-bq.HTAN.imaging_level4_metadata_current

• isb-cgc-bq.HTAN.imaging_level3_segmentation_metadata_current

• isb-cgc-bq.HTAN.imaging_level2_metadata_current

• isb-cgc-bq.HTAN.hiCseq_level2_metadata_current

• isb-cgc-bq.HTAN.hiCseq_level1_metadata_current

• isb-cgc-bq.HTAN.clinical_tier1_followup_current

• isb-cgc-bq.HTAN.clinical_tier1_familyhistory_current

• isb-cgc-bq.HTAN.clinical_tier1_exposure_current

• isb-cgc-bq.HTAN.clinical_tier1_diagnosis_current

• isb-cgc-bq.HTAN.clinical_tier1_demographics_current

• isb-cgc-bq.HTAN.clinical_tier2_current

• isb-cgc-bq.HTAN.bulkWES_level3_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level2_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level1_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.bulkMethylationseq_level2_metadata_current

• isb-cgc-bq.HTAN.bulkMethylationseq_level1_metadata_current

• isb-cgc-bq.HTAN.clinical_tier3_breast_current

• isb-cgc-bq.HTAN.biospecimen_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_scRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_scRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_scRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_auxiliaryfiles_metadata_current

• isb-cgc-bq.HTAN_versioned.tissueOrOrganOfOrigin_to_wholeOrgan_mapping_r4

• isb-cgc-bq.HTAN_versioned.imaging_level4_HTAPP_merfish_r4

• isb-cgc-bq.HTAN_versioned.imaging_level4_Duke_mibi_r4

• isb-cgc-bq.HTAN_versioned.imaging_level4_TNP_TMA_phase3_r4

• isb-cgc-bq.HTAN_versioned.imaging_level4_TNP_TMA_phase1_r4

• isb-cgc-bq.HTAN_versioned.imaging_level4_HMS_orion_r4

• isb-cgc-bq.HTAN_versioned.id_provenance_r4

• isb-cgc-bq.HTAN_versioned.schema_r4

• isb-cgc-bq.HTAN_versioned.imaging_channel_metadata_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_therapy_r4

• isb-cgc-bq.HTAN_versioned.scRNAseq_level4_metadata_r4

• isb-cgc-bq.HTAN_versioned.scRNAseq_level3_metadata_r4

• isb-cgc-bq.HTAN_versioned.scRNAseq_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.scRNAseq_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.scATACseq_level4_metadata_r4

• isb-cgc-bq.HTAN_versioned.scATACseq_level3_metadata_r4

• isb-cgc-bq.HTAN_versioned.scATACseq_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.scATACseq_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier3_brain_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_moleculartest_r4

• isb-cgc-bq.HTAN_versioned.massSpectrometry_level4_metadata_r4

• isb-cgc-bq.HTAN_versioned.massSpectrometry_level3_metadata_r4

• isb-cgc-bq.HTAN_versioned.massSpectrometry_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier3_lung_r4

• isb-cgc-bq.HTAN_versioned.imaging_level4_metadata_r4

• isb-cgc-bq.HTAN_versioned.imaging_level3_segmentation_metadata_r4

• isb-cgc-bq.HTAN_versioned.imaging_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.hiCseq_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.hiCseq_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_followup_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_familyhistory_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_exposure_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_diagnosis_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier1_demographics_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier2_r4

• isb-cgc-bq.HTAN_versioned.bulkWES_level3_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkWES_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkWES_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level3_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkMethylationseq_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.bulkMethylationseq_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.clinical_tier3_breast_r4

• isb-cgc-bq.HTAN_versioned.biospecimen_r4

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_scRNAseq_level3_metadata_r4

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_scRNAseq_level2_metadata_r4

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_scRNAseq_level1_metadata_r4

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_auxiliaryfiles_metadata_r4

October 16, 2023

New masked somatic mutation data added to isb-cgc-bq for GDC release 37.

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r36

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r36

• isb-cgc-bq.TARGET_versioned.masked_somatic_mutation_hg38_gdc_r36

BigQuery tables updated

• isb-cgc-bq.CPTAC.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TARGET.masked_somatic_mutation_hg38_gdc_current

August 24, 2023

New and Updated PDC v3.4 tables.

BigQuery tables created

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_CPTAC_TCGA_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_proteome_PTRC_HGSOC_FFPE_validation_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_proteome_PTRC_HGSOC_FFPE_discovery_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_PTRC_HGSOC_frozen_validation_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_PTRC_HGSOC_FFPE_validation_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_PTRC_HGSOC_FFPE_discovery_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_proteome_PTRC_HGSOC_frozen_validation_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_UCEC_confirmatory_study_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_confirmatory_study_pdc_V3_4

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_UCEC_confirmatory_study_pdc_V3_4

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V3_4

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2023_03

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V3_4

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V3_4

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V3_4

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V3_4

• isb-cgc-bq.PDC_metadata_versioned.studies_V3_4

• isb-cgc-bq.CPTAC.quant_proteome_PTRC_HGSOC_FFPE_validation_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_PTRC_HGSOC_FFPE_discovery_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_PTRC_HGSOC_frozen_validation_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_PTRC_HGSOC_FFPE_validation_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_PTRC_HGSOC_FFPE_discovery_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_PTRC_HGSOC_frozen_validation_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_UCEC_confirmatory_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_confirmatory_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_UCEC_confirmatory_study_pdc_current

BigQuery tables updated

• isb-cgc-bq.TCGA.per_sample_file_metadata_CPTAC_TCGA_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.CPTAC.clinical_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_proteogenomic_translational_research_centers_pdc_V3_4

• isb-cgc-bq.CPTAC.clinical_diagnoses_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_diagnoses_proteogenomic_translational_research_centers_pdc_V3_4

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_and_confirmatory_pdc_V3_4

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.studies_current

July 31, 2023

New and updated per sample file metadata added to isb-cgc-bq for GDC release 37.

BigQuery tables created

• isb-cgc-bq.TRIO_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.CDDP_EAGLE_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.EXC_RESPONDERS_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.MP2PRT_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.MATCH_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r37

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r37

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r37

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r37

BigQuery tables updated

• isb-cgc-bq.TRIO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MP2PRT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.MATCH.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CDDP_EAGLE.per_sample_file_metadata_hg38_gdc_current

July 20, 2023

New GDC Gene Level Copy Number tables.

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.TARGET_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.REBC_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.CGCI_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.HCMI_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.MP2PRT_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.CDDP_EAGLE_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.TCGA_versioned.copy_number_gene_level_hg38_gdc_r36

• isb-cgc-bq.CPTAC.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.TARGET.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.REBC.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.CGCI.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.HCMI.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.MP2PRT.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.CDDP_EAGLE.copy_number_gene_level_hg38_gdc_current

• isb-cgc-bq.TCGA.copy_number_gene_level_hg38_gdc_current

June 5, 2023

New and Updated PDC v3.0 tables. New and Updated HTAN tables.

BigQuery tables created

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_scRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_scRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_scRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.10xvisium_spatialtranscriptomics_auxiliaryfiles_metadata_current

• isb-cgc-bq.HTAN.id_provenance_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_tcell_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_immune_cells_current

• isb-cgc-bq.HTAN.scRNAseq_HTAPP_level4_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_myeloid_cells_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_immune_cells_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_epithelial_cells_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_combined_samples_current

• isb-cgc-bq.HTAN.imaging_channel_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_VAL_EPI_cellxgene_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_VAL_DIS_NOEPI_cellxgene_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_DIS_EPI_cellxgene_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_epithelial_cells_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_RU1215_epithelial_cells_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_NSCLC_epithelial_cells_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_Myeloid_SCLC_samples_only_current

• isb-cgc-bq.HTAN.scRNAseq_MSK_SCLC_Mesenchymal_cells_current

• isb-cgc-bq.HTAN.imaging_level4_HMS_mel_mask_current

• isb-cgc-bq.HTAN.imaging_level4_HMS_mel_current

• isb-cgc-bq.HTAN.imaging_level4_HMS_crc_mask_current

• isb-cgc-bq.HTAN.imaging_level4_HMS_crc_current

• isb-cgc-bq.HTAN.imaging_level4_metadata_current

• isb-cgc-bq.HTAN.imaging_level3_segmentation_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level3_metadata_current

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_scRNAseq_level3_metadata_r3

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_scRNAseq_level2_metadata_r3

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_scRNAseq_level1_metadata_r3

• isb-cgc-bq.HTAN_versioned.10xvisium_spatialtranscriptomics_auxiliaryfiles_metadata_r3

• isb-cgc-bq.HTAN_versioned.id_provenance_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_tcell_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_immune_cells_r3

• isb-cgc-bq.HTAN_versioned.schema_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_HTAPP_level4_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_myeloid_cells_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_immune_cells_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_epithelial_cells_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_combined_samples_r3

• isb-cgc-bq.HTAN_versioned.imaging_channel_metadata_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_HTAN_VAL_EPI_cellxgene_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_VAL_DIS_NOEPI_cellxgene_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_HTAN_DIS_EPI_cellxgene_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_therapy_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_level4_metadata_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_level3_metadata_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_level2_metadata_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_level1_metadata_r3

• isb-cgc-bq.HTAN_versioned.scATACseq_level4_metadata_r3

• isb-cgc-bq.HTAN_versioned.scATACseq_level1_metadata_r3

• isb-cgc-bq.HTAN_versioned.srrs_imaging_level2_metadata_r3

• isb-cgc-bq.HTAN_versioned.srrs_biospecimen_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_epithelial_cells_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_RU1215_epithelial_cells_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_NSCLC_epithelial_cells_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_Myeloid_SCLC_samples_only_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_moleculartest_r3

• isb-cgc-bq.HTAN_versioned.scRNAseq_MSK_SCLC_Mesenchymal_cells_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier3_lung_r3

• isb-cgc-bq.HTAN_versioned.imaging_level4_HMS_mel_mask_r3

• isb-cgc-bq.HTAN_versioned.imaging_level4_HMS_mel_r3

• isb-cgc-bq.HTAN_versioned.imaging_level4_HMS_crc_mask_r3

• isb-cgc-bq.HTAN_versioned.imaging_level4_HMS_crc_r3

• isb-cgc-bq.HTAN_versioned.imaging_level4_metadata_r3

• isb-cgc-bq.HTAN_versioned.imaging_level3_segmentation_metadata_r3

• isb-cgc-bq.HTAN_versioned.imaging_level2_metadata_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_followup_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_familyhistory_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_exposure_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_diagnosis_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier1_demographics_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier2_r3

• isb-cgc-bq.HTAN_versioned.bulkWES_level3_metadata_r3

• isb-cgc-bq.HTAN_versioned.bulkWES_level2_metadata_r3

• isb-cgc-bq.HTAN_versioned.bulkWES_level1_metadata_r3

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level3_metadata_r3

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level2_metadata_r3

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level1_metadata_r3

• isb-cgc-bq.HTAN_versioned.clinical_tier3_breast_r3

• isb-cgc-bq.HTAN_versioned.biospecimen_r3

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_V3_0

• isb-cgc-bq.APOLLO_versioned.per_sample_file_metadata_APOLLO1_pdc_V3_0

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_LUAD_discovery_study_pdc_V3_0

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_V3_0

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_LUAD_discovery_study_pdc_V3_0

• isb-cgc-bq.APOLLO.quant_phosphoproteome_APOLLO_LUAD_tio2_pdc_current

• isb-cgc-bq.APOLLO_versioned.quant_phosphoproteome_APOLLO_LUAD_tio2_pdc_V3_0

• isb-cgc-bq.APOLLO_versioned.quant_proteome_APOLLO_LUAD_pdc_V3_0

• isb-cgc-bq.APOLLO.quant_phosphoproteome_APOLLO_LUAD_fenta_pdc_current

• isb-cgc-bq.APOLLO_versioned.quant_phosphoproteome_APOLLO_LUAD_fenta_pdc_V3_0

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V3_0

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2023_02

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V3_0

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V3_0

• isb-cgc-bq.ICPC_versioned.clinical_PDAC_pdc_V3_0

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_and_confirmatory_pdc_V3_0

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V3_0

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V3_0

• isb-cgc-bq.PDC_metadata_versioned.studies_V3_0

BigQuery tables updated

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.APOLLO.per_sample_file_metadata_APOLLO1_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.APOLLO.quant_proteome_APOLLO_LUAD_pdc_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.ICPC.clinical_PDAC_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.HTAN.biospecimen_current

• isb-cgc-bq.HTAN.clinical_tier3_breast_current

• isb-cgc-bq.HTAN.bulkRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level1_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level2_metadata_current

• isb-cgc-bq.HTAN.clinical_tier2_current

• isb-cgc-bq.HTAN.clinical_tier1_demographics_current

• isb-cgc-bq.HTAN.clinical_tier1_diagnosis_current

• isb-cgc-bq.HTAN.clinical_tier1_exposure_current

• isb-cgc-bq.HTAN.clinical_tier1_familyhistory_current

• isb-cgc-bq.HTAN.clinical_tier1_followup_current

• isb-cgc-bq.HTAN.imaging_level2_metadata_current

• isb-cgc-bq.HTAN.clinical_tier3_lung_current

• isb-cgc-bq.HTAN.clinical_tier1_moleculartest_current

• isb-cgc-bq.HTAN.srrs_biospecimen_current

• isb-cgc-bq.HTAN.srrs_imaging_level2_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level1_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level4_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level4_metadata_current

• isb-cgc-bq.HTAN.clinical_tier1_therapy_current

• isb-cgc-bq.HTAN.schema_current

June, 2023

COSMIC tables removed from ISB-CGC BigQuery datasets.

May 30, 2023

New HTAN tables.

BigQuery tables created

• isb-cgc-bq.HTAN.scRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.srrs_clinical_tier2_current

May 26, 2023

New HTAN tables.

BigQuery tables created

• isb-cgc-bq.HTAN_versioned.scRNAseq_level1_metadata_r2_v2

• isb-cgc-bq.HTAN_versioned.scATACseq_level1_metadata_r2_v3

• isb-cgc-bq.HTAN_versioned.proteomics_metadata_r2

• isb-cgc-bq.HTAN_versioned.metabolomics_metadata_r2_v2

• isb-cgc-bq.HTAN_versioned.lipidomics_metadata_r2_v2

• isb-cgc-bq.HTAN_versioned.bulkWES_level1_metadata_r2_v2

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level1_metadata_r2_v2

• isb-cgc-bq.HTAN.bulkRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level1_metadata_current

• isb-cgc-bq.HTAN.proteomics_metadata_current

• isb-cgc-bq.HTAN.metabolomics_metadata_current

• isb-cgc-bq.HTAN.lipidomics_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level1_metadata_current

May 24, 2023

PDC v2.18 versioned tables, released on May 4, 2023, were removed and current tables were reverted to previous versions.

May 4, 2023

New and updated UniProt Ref Seq mapping table.

BigQuery tables created

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2023_01

BigQuery tables updated

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

May 3, 2023

New and updated GDC file, case, and clinical data for r37.

BigQuery tables created

• isb-cgc-bq.TRIO_versioned.clinical_gdc_r37

• isb-cgc-bq.TCGA_versioned.clinical_gdc_r37

• isb-cgc-bq.MATCH_versioned.clinical_gdc_r37

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r37

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r37

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r37

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r37

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r37

• isb-cgc-bq.GENIE_versioned.clinical_gdc_r37

• isb-cgc-bq.CTSP_versioned.clinical_diagnoses_gdc_r37

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r37

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r37

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r37

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_gdc_r37

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_treatments_gdc_r37

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_gdc_r37

• isb-cgc-bq.CGCI_versioned.clinical_gdc_r37

• isb-cgc-bq.CDDP_EAGLE_versioned.clinical_gdc_r37

• isb-cgc-bq.APOLLO_versioned.clinical_follow_ups_gdc_r37

• isb-cgc-bq.APOLLO_versioned.clinical_diagnoses_treatments_gdc_r37

• isb-cgc-bq.APOLLO_versioned.clinical_gdc_r37

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r37

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r37

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r37

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r37

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r37

• isb-cgc-bq.APOLLO.clinical_follow_ups_gdc_current

• isb-cgc-bq.APOLLO.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.APOLLO.clinical_gdc_current

BigQuery tables updated

• isb-cgc-bq.TRIO.clinical_gdc_current

• isb-cgc-bq.TCGA.clinical_gdc_current

• isb-cgc-bq.MATCH.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.GENIE.clinical_gdc_current

• isb-cgc-bq.CTSP.clinical_diagnoses_gdc_current

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CGCI.clinical_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_gdc_current

May 2, 2023

APOLLO1 dataset was removed and the APOLLO dataset was created to harmonize PDC and GDC data locations. The tables in APOLLO1 were moved to APOLLO.

BigQuery tables created

• isb-cgc-bq.APOLLO_versioned.per_sample_file_metadata_APOLLO1_pdc_V2_14

• isb-cgc-bq.APOLLO_versioned.clinical_APOLLO1_pdc_V2_14

• isb-cgc-bq.APOLLO.per_sample_file_metadata_APOLLO1_pdc_current

• isb-cgc-bq.APOLLO.clinical_APOLLO1_pdc_current

BigQuery tables removed

• isb-cgc-bq.APOLLO1_versioned.per_sample_file_metadata_APOLLO1_pdc_V2_14

• isb-cgc-bq.APOLLO1_versioned.clinical_APOLLO1_pdc_V2_14

• isb-cgc-bq.APOLLO1.per_sample_file_metadata_APOLLO1_pdc_current

• isb-cgc-bq.APOLLO1.clinical_APOLLO1_pdc_current

May 1, 2023

New masked somatic mutation data added to isb-cgc-bq for GDC release 36

BigQuery tables created

• isb-cgc-bq.CDDP_EAGLE_versioned.masked_somatic_mutation_hg38_gdc_r36

• isb-cgc-bq.CDDP_EAGLE.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CMI_versioned.masked_somatic_mutation_hg38_gdc_r36

• isb-cgc-bq.TCGA_versioned.masked_somatic_mutation_hg38_gdc_r36

BigQuery tables updated

• isb-cgc-bq.CMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TCGA.masked_somatic_mutation_hg38_gdc_current

April 20, 2023

New genome reference table.

BigQuery tables created

• isb-cgc.genome_reference.interpro_filtered_plus

March 23, 2023

New per sample file metadata added to isb-cgc-bq for GDC release 36.

BigQuery tables created

• isb-cgc-bq.TRIO_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.CDDP_EAGLE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CDDP_EAGLE_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.EXC_RESPONDERS.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.MP2PRT_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.MATCH.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MATCH_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r36

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r36

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r36

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r36

BigQuery tables updated

• isb-cgc-bq.TRIO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MP2PRT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

March 17, 2023

New and updated GDC open somatic mutation tables for GDC r35.

BigQuery tables created

• isb-cgc-bq.MMRF_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.TARGET_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.TCGA_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.CGCI_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.CMI_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.EXC_RESPONDERS_versioned.masked_somatic_mutation_hg38_gdc_r35

• isb-cgc-bq.BEATAML1_0_versioned.masked_somatic_mutation_hg38_gdc_r35

BigQuery tables updated

• isb-cgc-bq.MMRF.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TARGET.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TCGA.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CPTAC.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CGCI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.masked_somatic_mutation_hg38_gdc_current

March 15, 2023

New GDC Programs MATCH and CDDP_EAGLE. New and updated clinical data for GDC Release 36.

BigQuery tables created

• isb-cgc-bq.MATCH.clinical_gdc_current

• isb-cgc-bq.MATCH_versioned.clinical_gdc_r36

• isb-cgc-bq.CDDP_EAGLE.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_gdc_current

• isb-cgc-bq.CDDP_EAGLE_versioned.clinical_diagnoses_treatments_gdc_r36

• isb-cgc-bq.CDDP_EAGLE_versioned.clinical_gdc_r36

• isb-cgc-bq.TRIO_versioned.clinical_gdc_r36

• isb-cgc-bq.CMI_versioned.clinical_gdc_r36

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_diagnoses_treatments_gdc_r36

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_diagnoses_gdc_r36

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_gdc_r36

BigQuery tables updated

• isb-cgc-bq.TRIO.clinical_gdc_current

• isb-cgc-bq.CMI.clinical_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.clinical_diagnoses_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.clinical_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CDDP_EAGLE.clinical_gdc_current

March 8, 2023

Version 2 of HTAN SCATACSEQ LEVEL 1 METADATA R2

• isb-cgc-bq.HTAN.scATACseq_level1_metadata_current

• isb-cgc-bq.HTAN_versioned.scATACseq_level1_metadata_r2_v2

February 28, 2023

New GDC File ID to GCS URLs for GDC release 36.

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r36

February 27, 2023

New and updated PDC data for V2.16

BigQuery tables created

• isb-cgc-bq.ICPC_versioned.quant_proteome_KU_PDAC_discovery_study_global_proteome_pdc_V2_16

• isb-cgc-bq.ICPC_versioned.quant_proteome_proteogenomics_of_gastric_cancer_pdc_V2_16

• isb-cgc-bq.ICPC_versioned.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_V2_16

• isb-cgc-bq.ICPC_versioned.quant_proteome_academia_sinica_LUAD100_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_ex_vivo_drug_response_combination_treatment_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_PTRC_TNBC_PDX_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_PTRC_TNBC_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_ex_vivo_drug_response_sorafenib_treatment_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_quizartinib_resistance_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_gilteritinib_timecourse_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_PTRC_TNBC_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_ex_vivo_drug_response_primary_cohort_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_gilteritinib_resistance_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_breast_BI_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_JHU_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_GBM_discovery_study_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_discovery_study_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_PDA_discovery_study_pdc_V2_16

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LSCC_discovery_study_pdc_V2_16

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V2_16

BigQuery tables updated

• isb-cgc-bq.ICPC.quant_proteome_KU_PDAC_discovery_study_global_proteome_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_academia_sinica_LUAD100_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_ex_vivo_drug_response_combination_treatment_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_PTRC_TNBC_PDX_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_PTRC_TNBC_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_ex_vivo_drug_response_sorafenib_treatment_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_quizartinib_resistance_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_gilteritinib_timecourse_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_PTRC_TNBC_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_ex_vivo_drug_response_primary_cohort_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_gilteritinib_resistance_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_JHU_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_PDA_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.PDC_metadata.gene_info_current

February 13, 2023

New and updated PDC file, case, and clinical data for V2.16

BigQuery tables created

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V2_16

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_and_confirmatory_pdc_V2_16

• isb-cgc-bq.PDC_metadata_versioned.studies_V2_16

BigQuery tables updated

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.PDC_metadata.studies_current

January 30, 2023

New and updated RNAseq tables for GDC release 35

BigQuery tables created

• isb-cgc-bq.TARGET_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.CTSP_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.EXC_RESPONDERS_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.BEATAML1_0_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.CPTAC_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.MMRF_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.HCMI_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.NCICCR_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.OHSU_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.ORGANOID_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.TCGA_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.WCDT_versioned.RNAseq_hg38_gdc_r35

• isb-cgc-bq.CMI_versioned.RNAseq_hg38_gdc_r35

BigQuery tables updated

• isb-cgc-bq.TARGET.RNAseq_hg38_gdc_current

• isb-cgc-bq.CTSP.RNAseq_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.RNAseq_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.RNAseq_hg38_gdc_current

• isb-cgc-bq.CMI.RNAseq_hg38_gdc_current

• isb-cgc-bq.CPTAC.RNAseq_hg38_gdc_current

• isb-cgc-bq.MMRF.RNAseq_hg38_gdc_current

• isb-cgc-bq.HCMI.RNAseq_hg38_gdc_current

• isb-cgc-bq.NCICCR.RNAseq_hg38_gdc_current

• isb-cgc-bq.OHSU.RNAseq_hg38_gdc_current

• isb-cgc-bq.ORGANOID.RNAseq_hg38_gdc_current

• isb-cgc-bq.TCGA.RNAseq_hg38_gdc_current

• isb-cgc-bq.WCDT.RNAseq_hg38_gdc_current

January 13, 2023

New and updated GDC open somatic mutation tables for r34.

BigQuery tables created

• isb-cgc-bq.BEATAML1_0.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.MMRF.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TARGET.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.TCGA.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.CGCI_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.CMI_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.EXC_RESPONDERS_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.MMRF_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.TARGET_versioned.masked_somatic_mutation_hg38_gdc_r34

• isb-cgc-bq.TCGA_versioned.masked_somatic_mutation_hg38_gdc_r34

BigQuery tables updated

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CGCI.masked_somatic_mutation_hg38_gdc_current

BigQuery table deleted

The following tables were deleted to reflect the harmonization of datasets.

• isb-cgc-bq.TCGA.somatic_mutation_hg38_gdc_current

January 12, 2023

New and updated PDC file, case, and clinical data for V2.15.

BigQuery tables created

• isb-cgc-bq.PDC_metadata_versioned.studies_V2_15

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V2_15

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V2_15

• isb-cgc-bq.BROAD_versioned.clinical_Broad_pdc_V2_15

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_and_confirmatory_pdc_V2_15

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V2_15

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V2_15

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2022_05

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V2_15

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_V2_15

BigQuery tables updated

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.BROAD.clinical_Broad_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_current

January 10, 2023

New and updated GDC file and case data for r36.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r36

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r36

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r36

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r36

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r36

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

December 12, 2022

New and updated PDC file, case, and clinical data for V2.14. On December 20, 2022, tables were updated to the correct version number.

BigQuery datasets created

• APOLLO1

• APOLLO1_versioned

BigQuery tables created

• isb-cgc-bq.APOLLO1_versioned.per_sample_file_metadata_APOLLO1_pdc_V2_14

• isb-cgc-bq.APOLLO1.per_sample_file_metadata_APOLLO1_pdc_current

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_CPTAC_TCGA_pdc_V2_14

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V2_14

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V2_14

• isb-cgc-bq.BROAD_versioned.clinical_Broad_pdc_V2_14

• isb-cgc-bq.APOLLO1_versioned.clinical_APOLLO1_pdc_V2_14

• isb-cgc-bq.APOLLO1.clinical_APOLLO1_pdc_current

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V2_14

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V2_14

• isb-cgc-bq.PDC_metadata_versioned.studies_V2_14

BigQuery tables updated

• isb-cgc-bq.TCGA.per_sample_file_metadata_CPTAC_TCGA_pdc_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.BROAD.clinical_Broad_pdc_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.studies_current

BigQuery table deleted

The following tables were deleted as the tables names were updated to reflect the CPTAC3-Discovery to CPTAC3 Discovery and Confirmatory

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_pdc_current

• Superseded by isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_pdc_current

• Supersede by isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

November 16, 2022

New and updated GDC clinical tables and new per sample file metadata for GDC release 35. New and updated PDC file, case, and clinical data for V2.13.

Note: CPTAC3-Discovery was updated to CPTAC3 Discovery and Confirmatory with related tables names updated to reflect the program name change.

BigQuery datasets created

• BROAD

• BROAD_versioned

BigQuery tables created

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_PDAC_pdc_V2_13

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_CPTAC_TCGA_pdc_V2_13

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_other_pdc_V2_13

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_V2_13

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_V2_13

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.BROAD.per_sample_file_metadata_Broad_pdc_current

• isb-cgc-bq.BROAD_versioned.per_sample_file_metadata_Broad_pdc_V2_13

• isb-cgc-bq.ICPC.quant_phosphoproteome_KU_PDAC_discovery_study_pdc_current

• isb-cgc-bq.ICPC_versioned.quant_phosphoproteome_KU_PDAC_discovery_study_pdc_V2_13

• isb-cgc-bq.ICPC.quant_proteome_KU_PDAC_discovery_study_global_proteome_pdc_current

• isb-cgc-bq.ICPC_versioned.quant_proteome_KU_PDAC_discovery_study_global_proteome_pdc_V2_13

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V2_13

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2022_04

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V2_13

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V2_13

• isb-cgc-bq.ICPC_versioned.clinical_PDAC_pdc_V2_13

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_and_confirmatory_pdc_V2_13

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_and_confirmatory_pdc_current

• isb-cgc-bq.BROAD.clinical_Broad_pdc_current

• isb-cgc-bq.BROAD_versioned.clinical_Broad_pdc_V2_13

• isb-cgc-bq.PDC_metadata_versioned.studies_V2_13

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V2_13

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V2_13

• isb-cgc-bq.EXC_RESPONDERS.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.EXC_RESPONDERS_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.TRIO_versioned.clinical_gdc_r35

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r35

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r35

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r35

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r35

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r35

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r35

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_gdc_r35

• isb-cgc-bq.TRIO_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.MP2PRT_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r35

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r35

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r35

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r35

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r35

BigQuery tables updated

• isb-cgc-bq.ICPC.per_sample_file_metadata_PDAC_pdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_CPTAC_TCGA_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.ICPC.quant_phosphoproteome_KU_PDAC_discovery_study_pdc_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.ICPC.clinical_PDAC_pdc_current

• isb-cgc-bq.BROAD.clinical_Broad_pdc_current

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.TRIO.clinical_gdc_current

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq.TRIO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MP2PRT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

November 15, 2022

New and updated file and case metadata for GDC release 35.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r35

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r35

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r35

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r35

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r35

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

November 4, 2022

New and updated CPTAC Masked Somatic Mutation tables.

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r34

BigQuery tables updated

• isb-cgc-bq.CPTAC.masked_somatic_mutation_hg38_gdc_current

September 23, 2022

New clinical tables added to isb-cgc-bq for GDC release 34.

BigQuery tables created

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r34

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r34

• isb-cgc-bq.BEATAML1_0_versioned.clinical_gdc_r34

• isb-cgc-bq.CTSP_versioned.clinical_follow_ups_molecular_tests_gdc_r34

• isb-cgc-bq.CTSP_versioned.clinical_follow_ups_gdc_r34

• isb-cgc-bq.CTSP_versioned.clinical_diagnoses_treatments_gdc_r34

• isb-cgc-bq.CTSP_versioned.clinical_diagnoses_gdc_r34

Current clinical tables updated to GDC release 34.

BigQuery tables updated

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.BEATAML1_0.clinical_gdc_current

• isb-cgc-bq.CTSP.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.CTSP.clinical_follow_ups_gdc_current

• isb-cgc-bq.CTSP.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CTSP.clinical_diagnoses_gdc_current

September 22, 2022

New and updated PDC Quant V2.10 tables

BigQuery tables created

• isb-cgc-bq.CBTTC_versioned.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_JHU_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_breast_BI_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_colon_PNNL_qeplus_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_glycoproteome_prospective_ovarian_JHU_N_linked_glycosite_containing_peptide_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_ubiquitylome_CPTAC_LSCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_GBM_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_gilteritinib_resistance_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_AML_ex_vivo_drug_response_sorafenib_treatment_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_ex_vivo_drug_response_primary_cohort_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_AML_ex_vivo_drug_response_combination_treatment_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_AML_gilteritinib_resistance_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_gilteritinib_timecourse_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_quizartinib_resistance_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_ex_vivo_drug_response_sorafenib_treatment_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_AML_quizartinib_resistance_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_AML_ex_vivo_drug_response_primary_cohort_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_AML_gilteritinib_timecourse_pdc_V2_10

• isb-cgc-bq.CPTAC_versioned.quant_proteome_AML_ex_vivo_drug_response_combination_treatment_pdc_V2_10

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_breast_cancer_pdc_V2_10

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_JHU_pdc_V2_10

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_PNNL_pdc_V2_10

• isb-cgc-bq.ICPC_versioned.quant_phosphoproteome_academia_sinica_LUAD100_pdc_V2_10

• isb-cgc-bq.ICPC_versioned.quant_proteome_academia_sinica_LUAD100_pdc_V2_10

• isb-cgc-bq.ICPC_versioned.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_V2_10

• isb-cgc-bq.ICPC_versioned.quant_proteome_proteogenomics_of_gastric_cancer_pdc_V2_10

BigQuery tables updated

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_glycoproteome_prospective_ovarian_JHU_N_linked_glycosite_containing_peptide_pdc_current

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2022_03

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V2_10

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_AML_ex_vivo_drug_response_sorafenib_treatment_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_AML_ex_vivo_drug_response_combination_treatment_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_AML_gilteritinib_resistance_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_AML_quizartinib_resistance_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_AML_ex_vivo_drug_response_primary_cohort_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_AML_gilteritinib_timecourse_pdc_current

• isb-cgc-bq.ICPC.quant_phosphoproteome_academia_sinica_LUAD100_pdc_current

• isb-cgc-bq.CBTTC.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_JHU_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_colon_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_gilteritinib_resistance_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_ex_vivo_drug_response_primary_cohort_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_gilteritinib_timecourse_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_quizartinib_resistance_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_ex_vivo_drug_response_sorafenib_treatment_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_AML_ex_vivo_drug_response_combination_treatment_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_JHU_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_PNNL_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_academia_sinica_LUAD100_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.CPTAC.quant_ubiquitylome_CPTAC_LSCC_discovery_study_pdc_current

September 9, 2022

New PDC V2.10 tables

BigQuery tables created

• isb-cgc-bq.ICPC.per_sample_file_metadata_academia_sinica_LUAD_100_pdc_current

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_academia_sinica_LUAD_100_pdc_V2_10

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_other_pdc_V2_10

• isb-cgc-bq.CPTAC.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_V2_10

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_pdc_current

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_pdc_V2_10

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC_2_pdc_V2_10

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V2_10

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V2_10

• isb-cgc-bq.CPTAC.clinical_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_proteogenomic_translational_research_centers_pdc_V2_10

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies.clinical_pct_swath_kidney_pdc_current

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies_versioned.clinical_pct_swath_kidney_pdc_V2_10

• isb-cgc-bq.TCGA.clinical_CPTAC_TCGA_pdc_current

• isb-cgc-bq.TCGA_versioned.clinical_CPTAC_TCGA_pdc_V2_10

• isb-cgc-bq.CPTAC.clinical_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC_2_pdc_V2_10

• isb-cgc-bq.CPTAC.clinical_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_other_pdc_V2_10

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_pdc_V2_10

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V2_10

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V2_10

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.PDC_metadata_versioned.studies_V2_10

September 6, 2022

New per sample file metadata added to isb-cgc-bq for GDC release 33 and 34.

BigQuery tables created

• isb-cgc-bq.TRIO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TRIO_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.REBC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.MP2PRT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MP2PRT_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r34

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r34

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r34

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r34

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r33p1

• isb-cgc-bq.MP2PRT_versioned.per_sample_file_metadata_hg38_gdc_r33p1

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r33p1

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r33p1

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r33p1

August 31, 2022 and September 2, 2022

New file metadata tables added to isb-cgc-bq for GDC release 33 and 34.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r34

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r34

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r34

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r34

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r34

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r33p1

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r33p1

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r33p1

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r33p1

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r33p1

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r34

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r33p1

July 22, 2022

New per sample file metadata added to isb-cgc-bq for GDC release 32.

BigQuery tables created

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r32

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r32

June 23, 2022

HTAN data added

BigQuery tables created

• isb-cgc-bq.HTAN_versioned.scRNAseq_CHOP_seurat_regrCycleHeatShockGenes_pool_18Infants_scRNA_VEG3000_updated_rename_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_CHOP_seurat_pool_logNorm_gini_FiveHD_10Xv3_downsample10000HSPC_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_CHOP_seurat_integrated_18MLLr_normal_final_rename_r2

• isb-cgc-bq.HTAN_versioned.schema_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_HTAN_VAL_EPI_V2_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_HTAN_VAL_DIS_NONEPI_V2_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_HTAN_DIS_EPI_V2_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_VUMC_ABNORMALS_EPI_V2_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_therapy_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_level4_metadata_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_level3_metadata_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_level2_metadata_r2

• isb-cgc-bq.HTAN_versioned.scRNAseq_level1_metadata_r2

• isb-cgc-bq.HTAN_versioned.scATACseq_level4_metadata_r2

• isb-cgc-bq.HTAN_versioned.scATACseq_level3_metadata_r2

• isb-cgc-bq.HTAN_versioned.scATACseq_level1_metadata_r2

• isb-cgc-bq.HTAN_versioned.srrs_imaging_level2_metadata_r2

• isb-cgc-bq.HTAN_versioned.srrs_clinical_tier2_r2

• isb-cgc-bq.HTAN_versioned.srrs_biospecimen_r2

• isb-cgc-bq.HTAN_versioned.proteomics_metadata_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_moleculartest_r2`

• isb-cgc-bq.HTAN_versioned.metabolomics_metadata_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier3_lung_r2

• isb-cgc-bq.HTAN_versioned.lipidomics_metadata_r2

• isb-cgc-bq.HTAN_versioned.imaging_level2_metadata_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_followup_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_familyhistory_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_exposure_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_diagnosis_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier1_demographics_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier2_r2

• isb-cgc-bq.HTAN_versioned.bulkWES_level2_metadata_r2

• isb-cgc-bq.HTAN_versioned.bulkWES_level1_metadata_r2

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level3_metadata_r2

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level2_metadata_r2

• isb-cgc-bq.HTAN_versioned.bulkRNAseq_level1_metadata_r2

• isb-cgc-bq.HTAN_versioned.clinical_tier3_breast_r2

• isb-cgc-bq.HTAN_versioned.biospecimen_r2

• isb-cgc-bq.HTAN.scRNAseq_CHOP_seurat_regrCycleHeatShockGenes_pool_18Infants_scRNA_VEG3000_updated_rename_current

• isb-cgc-bq.HTAN.scRNAseq_CHOP_seurat_pool_logNorm_gini_FiveHD_10Xv3_downsample10000HSPC_current

• isb-cgc-bq.HTAN.scRNAseq_CHOP_seurat_integrated_18MLLr_normal_final_rename_current

• isb-cgc-bq.HTAN.schema_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_VAL_EPI_V2_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_VAL_DIS_NONEPI_V2_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_HTAN_DIS_EPI_V2_current

• isb-cgc-bq.HTAN.scRNAseq_VUMC_ABNORMALS_EPI_V2_current

• isb-cgc-bq.HTAN.clinical_tier1_therapy_current

• isb-cgc-bq.HTAN.scRNAseq_level4_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.scRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level4_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level3_metadata_current

• isb-cgc-bq.HTAN.scATACseq_level1_metadata_current

• isb-cgc-bq.HTAN.srrs_imaging_level2_metadata_current

• isb-cgc-bq.HTAN.srrs_clinical_tiecurrent_current

• isb-cgc-bq.HTAN.srrs_biospecimen_current

• isb-cgc-bq.HTAN.proteomics_metadata_current

• isb-cgc-bq.HTAN.clinical_tier1_moleculartest_current

• isb-cgc-bq.HTAN.metabolomics_metadata_current

• isb-cgc-bq.HTAN.clinical_tier3_lung_current

• isb-cgc-bq.HTAN.lipidomics_metadata_current

• isb-cgc-bq.HTAN.imaging_level2_metadata_current

• isb-cgc-bq.HTAN.clinical_tier1_followup_current

• isb-cgc-bq.HTAN.clinical_tier1_familyhistory_current

• isb-cgc-bq.HTAN.clinical_tier1_exposure_current

• isb-cgc-bq.HTAN.clinical_tier1_diagnosis_current

• isb-cgc-bq.HTAN.clinical_tier1_demographics_current

• isb-cgc-bq.HTAN.clinical_tier2_current

• isb-cgc-bq.HTAN.bulkWES_level2_metadata_current

• isb-cgc-bq.HTAN.bulkWES_level1_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level3_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level2_metadata_current

• isb-cgc-bq.HTAN.bulkRNAseq_level1_metadata_current

• isb-cgc-bq.HTAN.clinical_tier3_breast_current

• isb-cgc-bq.HTAN.biospecimen_current

June 15, 2022

New clinical tables added to isb-cgc-bq for GDC release 33.

BigQuery tables created

• isb-cgc-bq.TRIO.clinical_gdc_current

• isb-cgc-bq.TRIO_versioned.clinical_gdc_r33

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r33

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r33

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r33

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r33

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r33

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r33

• isb-cgc-bq.CMI_versioned.clinical_gdc_r33

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r33

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_gdc_r33

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_treatments_gdc_r33

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_gdc_r33

• isb-cgc-bq.CGCI_versioned.clinical_gdc_r33

• isb-cgc-bq.MP2PRT.clinical_gdc_current

• isb-cgc-bq.MP2PRT_versioned.clinical_gdc_r33

• isb-cgc-bq.EXC_RESPONDERS.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_diagnoses_treatments_gdc_r33

• isb-cgc-bq.EXC_RESPONDERS.clinical_diagnoses_gdc_current

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_diagnoses_gdc_r33

• isb-cgc-bq.EXC_RESPONDERS.clinical_gdc_current

• isb-cgc-bq.EXC_RESPONDERS_versioned.clinical_gdc_r33

BigQuery tables updated

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.CMI.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CGCI.clinical_gdc_current

May 5, 2022

New file metadata tables added to isb-cgc-bq for GDC release 32.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r32

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r32

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r32

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r32

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r32

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

April 28, 2022

Cluster these TCGA DNA methylation and TCGA RNAseq tables to improve query performance.

BigQuery tables created

• isb-cgc-bq.TCGA.DNA_methylation_hg19_gdc_current

• isb-cgc-bq.TCGA.DNA_methylation_hg38_gdc_current

• isb-cgc-bq.TCGA.RNAseq_hg19_gdc_current

• isb-cgc-bq.TCGA.RNAseq_hg38_gdc_current

BigQuery tables updated

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

February 10, 2022

New clinical tables added to isb-cgc-bq for GDC release 31.

BigQuery tables created

• isb-cgc-bq.REBC_versioned.clinical_gdc_r31

• isb-cgc-bq.REBC.clinical_gdc_current

• isb-cgc-bq.REBC_versioned.clinical_diagnoses_treatments_gdc_r31

• isb-cgc-bq.REBC.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.TRIO_versioned.clinical_gdc_r31

• isb-cgc-bq.TRIO.clinical_gdc_current

• isb-cgc-bq.BEATAML1_0_versioned.clinical_gdc_r31

• isb-cgc-bq.CGCI_versioned.clinical_gdc_r31

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_gdc_r31

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_treatments_gdc_r31

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_gdc_r31

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r31

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r31

• isb-cgc-bq.FM_versioned.clinical_gdc_r31

• isb-cgc-bq.GENIE_versioned.clinical_gdc_r31

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r31

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r31

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r31

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r31

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r31

• isb-cgc-bq.MMRF_versioned.clinical_gdc_r31

• isb-cgc-bq.NCICCR_versioned.clinical_gdc_r31

• isb-cgc-bq.OHSU_versioned.clinical_gdc_r31

• isb-cgc-bq.ORGANOID_versioned.clinical_gdc_r31

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r31

• isb-cgc-bq.TCGA_versioned.clinical_gdc_r31

• isb-cgc-bq.VAREPOP_versioned.clinical_gdc_r31

• isb-cgc-bq.WCDT_versioned.clinical_gdc_r31

Current clinical tables updated to GDC release 31.

BigQuery tables updated

• isb-cgc-bq.BEATAML1_0.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.FM.clinical_gdc_current

• isb-cgc-bq.GENIE.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.MMRF.clinical_gdc_current

• isb-cgc-bq.NCICCR.clinical_gdc_current

• isb-cgc-bq.OHSU.clinical_gdc_current

• isb-cgc-bq.ORGANOID.clinical_gdc_current

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.TCGA.clinical_gdc_current

• isb-cgc-bq.VAREPOP.clinical_gdc_current

• isb-cgc-bq.WCDT.clinical_gdc_current

February 2, 2022

New tables for Synthetic Lethality.

BigQuery tables created

• isb-cgc-bq.annotations.gene_info_human_NCBI_current

• isb-cgc-bq.annotations.gene2ensembl_human_NCBI_current

• isb-cgc-bq.annotations.gene2refseq_human_NCBI_current

• isb-cgc-bq.annotations.Human2Yeast_mapping_Alliance_for_Genome_Resources_current

• isb-cgc-bq.annotations.Yeast2Human_mapping_Alliance_for_Genome_Resources_current

• isb-cgc-bq.annotations_versioned.gene_info_human_NCBI_2020_07

• isb-cgc-bq.annotations_versioned.gene2ensembl_human_NCBI_2020_07

• isb-cgc-bq.annotations_versioned.gene2refseq_human_NCBI_2020_07

• isb-cgc-bq.annotations_versioned.Human2Yeast_mapping_Alliance_for_Genome_Resources_R3_0_1

• isb-cgc-bq.annotations_versioned.Yeast2Human_mapping_Alliance_for_Genome_Resources_R3_0_1

• isb-cgc-bq.DEPMAP.Achilles_gene_effect_DepMapPublic_current

• isb-cgc-bq.DEPMAP.CCLE_gene_cn_DepMapPublic_current

• isb-cgc-bq.DEPMAP.CCLE_gene_expression_DepMapPublic_current

• isb-cgc-bq.DEPMAP.CCLE_mutation_DepMapPublic_current

• isb-cgc-bq.DEPMAP.CCLE_SomaticMutation_DEMETER2_current

• isb-cgc-bq.DEPMAP.Combined_gene_dep_score_DEMETER2_current

• isb-cgc-bq.DEPMAP.RNAseq_IRPKM_DEMETER2_current

• isb-cgc-bq.DEPMAP.Sample_Info_DEMETER2_current

• isb-cgc-bq.DEPMAP.sample_info_DepMapPublic_current

• isb-cgc-bq.DEPMAP.WES_SNP_CN_DEMETER2_current

• isb-cgc-bq.DEPMAP_versioned.Achilles_gene_effect_DepMapPublic_20Q3

• isb-cgc-bq.DEPMAP_versioned.CCLE_gene_cn_DepMapPublic_20Q3

• isb-cgc-bq.DEPMAP_versioned.CCLE_gene_expression_DepMapPublic_20Q3

• isb-cgc-bq.DEPMAP_versioned.CCLE_mutation_DepMapPublic_20Q3

• isb-cgc-bq.DEPMAP_versioned.CCLE_SomaticMutation_DEMETER2_v6

• isb-cgc-bq.DEPMAP_versioned.Combined_gene_dep_score_DEMETER2_v6

• isb-cgc-bq.DEPMAP_versioned.RNAseq_IRPKM_DEMETER2_v6

• isb-cgc-bq.DEPMAP_versioned.Sample_Info_DEMETER2_v6

• isb-cgc-bq.DEPMAP_versioned.sample_info_DepMapPublic_20Q3

• isb-cgc-bq.DEPMAP_versioned.WES_SNP_CN_DEMETER2_v6

• isb-cgc-bq.supplementary_tables.Bailey_etal_Cell_2018_cancer_driver_genes

• isb-cgc-bq.supplementary_tables.Constanzo_etal_Science_2016_SGA_Genetic_Interactions

• isb-cgc-bq.synthetic_lethality.gene_info_human_HGNC_NCBI_2020_07

• isb-cgc-bq.synthetic_lethality.sample_info_TCGAlabels_DepMapPublic_20Q3

January 26, 2022

New GENCODE annotation tables.

BigQuery tables created

• isb-cgc-bq.GENCODE_versioned.annotation_gtf_hg38_v39

BigQuery tables updated

• isb-cgc-bq.GENCODE.annotation_gtf_hg38_current

January 13, 2022

New TCGA Radiology Images tables.

BigQuery tables created

• isb-cgc-bq.TCGA_versioned.radiology_images_tcia_2022_01

BigQuery tables updated

• isb-cgc-bq.TCGA.radiology_images_tcia_current

December 7, 2021

New per sample file metadata added to isb-cgc-bq for GDC release 30.

BigQuery tables created

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.REBC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.REBC_versioned.per_sample_file_metadata_hg38_gdc_r30

• isb-cgc-bq.TRIO.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TRIO_versioned.per_sample_file_metadata_hg38_gdc_r30

Current per sample file metadata tables updated to GDC release 30.

BigQuery tables updated

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_current

New Datasets REBC, REBC_versioned, TRIO, and TRIO_versioned were created.

November 3, 2021 and December 3, 2021

New file metadata tables added to isb-cgc-bq for GDC release 30.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r30

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r30

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r30

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r30

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r30

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r30

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

October 19, 2021

New Pan-Cancer Atlas Clinical and Survival Data

BigQuery table created

• isb-cgc-bq.pancancer_atlas.TCGA_Clinical_Data_Resource_Extra

October 1, 2021

New Targetome datasets and tables added to isb-cgc-bq.

BigQuery tables created

• isb-cgc-bq.targetome.drug_synonyms_current

• isb-cgc-bq.targetome.experiments_current

• isb-cgc-bq.targetome.interactions_current

• isb-cgc-bq.targetome.sources_current

• isb-cgc-bq.targetome.target_synonyms_current

• isb-cgc-bq.targetome_versioned.drug_synonyms_v1

• isb-cgc-bq.targetome_versioned.experiments_v1

• isb-cgc-bq.targetome_versioned.interactions_v1

• isb-cgc-bq.targetome_versioned.sources_v1

• isb-cgc-bq.targetome_versioned.target_synonyms_v1

September 22, 2021

BigQuery tables created

New Copy Number Segment tables added to isb-cgc-bq.

• isb-cgc-bq.CGCI.copy_number_segment_hg38_gdc_current

• isb-cgc-bq.CGCI_versioned.copy_number_segment_hg38_gdc_r27

• isb-cgc-bq.CPTAC.copy_number_segment_hg38_gdc_current

• isb-cgc-bq.CPTAC_versioned.copy_number_segment_hg38_gdc_r28

• isb-cgc-bq.HCMI.copy_number_segment_hg38_gdc_current

• isb-cgc-bq.HCMI_versioned.copy_number_segment_hg38_gdc_r29

• isb-cgc-bq.TARGET.copy_number_segment_allelic_hg38_gdc_current

• isb-cgc-bq.TARGET_versioned.copy_number_segment_allelic_hg38_gdc_r23

• isb-cgc-bq.TCGA.copy_number_segment_allelic_hg38_gdc_current

• isb-cgc-bq.TCGA_versioned.copy_number_segment_allelic_hg38_gdc_r23

September 3, 2021

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r28

BigQuery tables updated

• isb-cgc-bq.CPTAC.masked_somatic_mutation_hg38_gdc_current

September 1, 2021

New Reactome datasets and tables added to isb-cgc-bq.

BigQuery tables created

• isb-cgc-bq.reactome.pathway_current

• isb-cgc-bq.reactome.physical_entity_current

• isb-cgc-bq.reactome.pe_to_pathway_current

• isb-cgc-bq.reactome.pathway_hierarchy_current

• isb-cgc-bq.reactome_versioned.pathway_v77

• isb-cgc-bq.reactome_versioned.physical_entity_v77

• isb-cgc-bq.reactome_versioned.pe_to_pathway_v77

• isb-cgc-bq.reactome_versioned.pathway_hierarchy_v77

Added release 28 miRNAseq isoform table and RNAseq for TCGA

BigQuery tables created

• isb-cgc-bq.TCGA_versioned.miRNAseq_isoform_hg38_gdc_r28

• isb-cgc-bq.TCGA_versioned.miRNAseq_hg38_gdc_r28

• isb-cgc-bq.TCGA_versioned.RNAseq_hg38_gdc_r28

BigQuery tables updated

• isb-cgc-bq.TCGA.miRNAseq_isoform_hg38_gdc_current

• isb-cgc-bq.TCGA.miRNAseq_hg38_gdc_current

• isb-cgc-bq.TCGA.RNAseq_hg38_gdc_current

August 2, 2021

New study, case metadata, file metadata, clinical, project-level per-sample file, and protein abundance log2ratio (quant) tables added to isb-cgc-bq for PDC V1.21.

BigQuery tables created

• isb-cgc-bq.CBTTC_versioned.quant_phosphoproteome_pediatric_brain_cancer_pilot_study_pdc_V1_21

• isb-cgc-bq.CBTTC_versioned.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_other_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.clinical_proteogenomic_translational_research_centers_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC2_other_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_other_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_GBM_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_LUAD_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_UCEC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_prospective_breast_BI_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_glycoproteome_prospective_ovarian_JHU_N_linked_glycosite_containing_peptide_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_CCRCC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_GBM_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_HNSCC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_LUAD_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_UCEC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_prospective_breast_BI_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_prospective_colon_PNNL_lumos_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_prospective_ovarian_PNNL_lumos_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_GBM_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_discovery_study_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_breast_BI_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_colon_PNNL_qeplus_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_JHU_pdc_V1_21

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_V1_21

• isb-cgc-bq.ICPC_versioned.quant_phosphoproteome_HBV_related_hepatocellular_carcinoma_pdc_V1_21

• isb-cgc-bq.ICPC_versioned.quant_phosphoproteome_proteogenomics_of_gastric_cancer_pdc_V1_21

• isb-cgc-bq.ICPC_versioned.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_V1_21

• isb-cgc-bq.ICPC_versioned.quant_proteome_proteogenomics_of_gastric_cancer_pdc_V1_21

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V1_21

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V1_21

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V1_21

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V1_21

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V1_21

• isb-cgc-bq.PDC_metadata_versioned.studies_V1_21

• isb-cgc-bq.TCGA_versioned.clinical_CPTAC_TCGA_pdc_V1_21

• isb-cgc-bq.TCGA_versioned.quant_phosphoproteome_TCGA_breast_cancer_pdc_V1_21

• isb-cgc-bq.TCGA_versioned.quant_phosphoproteome_TCGA_ovarian_PNNL_velos_qexactive_pdc_V1_21

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_breast_cancer_pdc_V1_21

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_JHU_pdc_V1_21

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_PNNL_pdc_V1_21

BigQuery tables updated

• isb-cgc-bq.CBTTC.quant_phosphoproteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CBTTC.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.clinical_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC2_other_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_proteogenomic_translational_research_centers_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_glycoproteome_prospective_ovarian_JHU_N_linked_glycosite_containing_peptide_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_HNSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_prospective_colon_PNNL_lumos_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_prospective_ovarian_PNNL_lumos_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_colon_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_JHU_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_current

• isb-cgc-bq.ICPC.quant_phosphoproteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_phosphoproteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.TCGA.clinical_CPTAC_TCGA_pdc_current

• isb-cgc-bq.TCGA.quant_phosphoproteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA.quant_phosphoproteome_TCGA_ovarian_PNNL_velos_qexactive_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_JHU_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_PNNL_pdc_current

July 14, 2021

Added release 28 miRNAseq isoform table for CPTAC

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.miRNAseq_isoform_hg38_gdc_r28

• isb-cgc-bq.CPTAC.miRNAseq_isoform_hg38_gdc_current

June 21, 2021

Updated the release 28 CPTAC miRNAseq tables to include the sample_type_name field

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.miRNAseq_hg38_gdc_r28_v2

BigQuery tables updated

• isb-cgc-bq.CPTAC.miRNAseq_hg38_gdc_current

June 18, 2021

New study, case metadata, file metadata, clinical, project-level per-sample file, and protein abundance log2ratio (quant) tables added to isb-cgc-bq for PDC V1.19.

BigQuery tables created

• isb-cgc-bq.CBTTC_versioned.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC2_other_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_other_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_glycoproteome_prospective_ovarian_JHU_N_linked_glycosite_containing_peptide_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_GBM_discovery_study_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_discovery_study_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_breast_BI_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_colon_PNNL_qeplus_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_JHU_pdc_V1_19

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_V1_19

• isb-cgc-bq.ICPC_versioned.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_V1_19

• isb-cgc-bq.ICPC_versioned.quant_proteome_proteogenomics_of_gastric_cancer_pdc_V1_19

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V1_19

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V1_19

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V1_19

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V1_19

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V1_19

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2021_03

• isb-cgc-bq.PDC_metadata_versioned.studies_V1_19

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_breast_cancer_pdc_V1_19

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_JHU_pdc_V1_19

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_PNNL_pdc_V1_19

BigQuery tables updated

• isb-cgc-bq.CBTTC.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC2_other_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.quant_glycoproteome_prospective_ovarian_JHU_N_linked_glycosite_containing_peptide_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_colon_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_JHU_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_JHU_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_PNNL_pdc_current

June 10, 2021

New study and project-level per sample file metadata tables added to isb-cgc-bq for PDC V1.17.

BigQuery tables created

• isb-cgc-bq.PDC_metadata_versioned.studies_V1_17

• isb-cgc-bq.CBTTC_versioned.per_sample_file_metadata_pediatric_brain_cancer_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC_2_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC2_other_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_discovery_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_CPTAC3_other_pdc_V1_17

• isb-cgc-bq.GPRP_versioned.per_sample_file_metadata_georgetown_lung_cancer_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_academia_sinica_LUAD_100_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_HBV_related_hepatocellular_carcinoma_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_human_early_onset_gastric_cancer_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.per_sample_file_metadata_oral_squamous_cell_carcinoma_pdc_V1_17

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies_versioned.per_sample_file_metadata_pct_swath_kidney_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_CPTAC_TCGA_pdc_V1_17

• isb-cgc-bq.PDC_metadata.studies_current

• isb-cgc-bq.CBTTC.per_sample_file_metadata_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC2_other_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_discovery_pdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_CPTAC3_other_pdc_current

• isb-cgc-bq.GPRP.per_sample_file_metadata_georgetown_lung_cancer_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_academia_sinica_LUAD_100_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_human_early_onset_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC.per_sample_file_metadata_oral_squamous_cell_carcinoma_pdc_current

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies.per_sample_file_metadata_pct_swath_kidney_pdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_CPTAC_TCGA_pdc_current

May 28, 2021

New per sample file metadata added to isb-cgc-bq for GDC release 29.

BigQuery tables created

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r29

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r29

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r29

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r29

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r29

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r29

Current per sample file metadata tables updated to GDC release 29.

BigQuery tables updated

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

May 27, 2021

New controlled-access VCF tables.

BigQuery tables created

• isb-cgc-cbq.VAREPOP_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.VAREPOP.vcf_hg38_gdc_current

• isb-cgc-cbq.TCGA_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.TCGA.vcf_hg38_gdc_current

• isb-cgc-cbq.ORGANOID_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.ORGANOID.vcf_hg38_gdc_current

• isb-cgc-cbq.MMRF_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.MMRF.vcf_hg38_gdc_current

• isb-cgc-cbq.HCMI_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.HCMI.vcf_hg38_gdc_current

• isb-cgc-cbq.FM_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.FM.vcf_hg38_gdc_current

May 26, 2021

New case metadata, file metadata, clinical, and quant data (for actylome, glycoproteome, phosphoproteome, and proteome) added to isb-cgc-bq from PDC V1.17.

BigQuery tables created

• isb-cgc-bq.CBTTC_versioned.clinical_diagnoses_pediatric_brain_cancer_pdc_V1_17

• isb-cgc-bq.CBTTC_versioned.clinical_pediatric_brain_cancer_pdc_V1_17

• isb-cgc-bq.CBTTC_versioned.quant_phosphoproteome_pediatric_brain_cancer_pilot_study_pdc_V1_17

• isb-cgc-bq.CBTTC_versioned.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC_2_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC2_other_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_other_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_GBM_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_LUAD_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_CPTAC_UCEC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_acetylome_prospective_breast_BI_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_glycoproteome_prospective_ovarian_JHU_n_linked_glycosite_containing_peptide_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_CCRCC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_GBM_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_HNSCC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_LUAD_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_CPTAC_UCEC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_prospective_breast_BI_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_prospective_colon_PNNL_lumos_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_phosphoproteome_prospective_ovarian_PNNL_lumos_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_GBM_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_discovery_study_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_breast_BI_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_colon_PNNL_qeplus_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_JHU_pdc_V1_17

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_V1_17

• isb-cgc-bq.GPRP_versioned.clinical_georgetown_lung_cancer_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.clinical_academia_sinica_LUAD_100_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.clinical_HBV_related_hepatocellular_carcinoma_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.clinical_human_early_onset_gastric_cancer_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.clinical_oral_squamous_cell_carcinoma_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.quant_phosphoproteome_HBV_related_hepatocellular_carcinoma_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.quant_phosphoproteome_proteogenomics_of_gastric_cancer_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_V1_17

• isb-cgc-bq.ICPC_versioned.quant_proteome_proteogenomics_of_gastric_cancer_pdc_V1_17

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_V1_17

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_V1_17

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V1_17

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V1_17

• isb-cgc-bq.PDC_metadata_versioned.gene_info_V1_17

• isb-cgc-bq.PDC_metadata_versioned.refseq_mapping_2021_02

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies_versioned.clinical_pct_swath_kidney_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.clinical_CPTAC_TCGA_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.quant_phosphoproteome_TCGA_breast_cancer_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.quant_phosphoproteome_TCGA_ovarian_PNNL_velos_qexactive_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_breast_cancer_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_JHU_pdc_V1_17

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_PNNL_pdc_V1_17

• isb-cgc-bq.CBTTC.quant_phosphoproteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC2_other_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_other_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_acetylome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_glycoproteome_prospective_ovarian_JHU_n_linked_glycosite_containing_peptide_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_HNSCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_prospective_colon_PNNL_lumos_pdc_current

• isb-cgc-bq.CPTAC.quant_phosphoproteome_prospective_ovarian_PNNL_lumos_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_GBM_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_HNSCC_discovery_study_pdc_current

• isb-cgc-bq.ICPC.quant_phosphoproteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_phosphoproteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.PDC_metadata.gene_info_current

• isb-cgc-bq.PDC_metadata.refseq_mapping_current

• isb-cgc-bq.TCGA.quant_phosphoproteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA.quant_phosphoproteome_TCGA_ovarian_PNNL_velos_qexactive_pdc_current

BigQuery tables updated

• isb-cgc-bq.CBTTC.clinical_diagnoses_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CBTTC.clinical_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CBTTC.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_colon_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_JHU_pdc_current

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_current

• isb-cgc-bq.GPRP.clinical_georgetown_lung_cancer_pdc_current

• isb-cgc-bq.ICPC.clinical_academia_sinica_LUAD_100_pdc_current

• isb-cgc-bq.ICPC.clinical_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.clinical_human_early_onset_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC.clinical_oral_squamous_cell_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC.quant_proteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_current

• isb-cgc-bq.PDC_metadata.case_metadata_current

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies.clinical_pct_swath_kidney_pdc_current

• isb-cgc-bq.TCGA.clinical_CPTAC_TCGA_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_JHU_pdc_current

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_PNNL_pdc_current

New CPTAC controlled-access VCF tables.

BigQuery tables created

• isb-cgc-cbq.CPTAC3_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.CPTAC3.vcf_hg38_gdc_current

• isb-cgc-cbq.CPTAC2_versioned.vcf_hg38_gdc_r24

• isb-cgc-cbq.CPTAC2.vcf_hg38_gdc_current

May 24, 2021

New CPTAC RNA Seq table added to isb-cgc-bq for GDC release 28.

BigQuery tables created

• isb-cgc-bq.CPTAC_versioned.RNAseq_hg38_gdc_r28

BigQuery tables updated

• isb-cgc-bq.CPTAC.RNAseq_hg38_gdc_current

May 21, 2021

New clinical tables added to isb-cgc-bq for GDC release 29.

BigQuery tables created

• isb-cgc-bq.BEATAML1_0_versioned.clinical_gdc_r29

• isb-cgc-bq.CGCI_versioned.clinical_gdc_r29

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_gdc_r29

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_treatments_gdc_r29

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_gdc_r29

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r29

• isb-cgc-bq.CMI_versioned.clinical_gdc_r29

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r29

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r29

• isb-cgc-bq.FM_versioned.clinical_gdc_r29

• isb-cgc-bq.GENIE_versioned.clinical_gdc_r29

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r29

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r29

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r29

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r29

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r29

• isb-cgc-bq.MMRF_versioned.clinical_gdc_r29

• isb-cgc-bq.MMRF_versioned.clinical_diagnoses_treatments_gdc_r29

• isb-cgc-bq.MMRF_versioned.clinical_family_histories_gdc_r29

• isb-cgc-bq.MMRF_versioned.clinical_follow_ups_gdc_r29

• isb-cgc-bq.MMRF_versioned.clinical_follow_ups_molecular_tests_gdc_r29

• isb-cgc-bq.NCICCR_versioned.clinical_gdc_r29

• isb-cgc-bq.OHSU_versioned.clinical_gdc_r29

• isb-cgc-bq.ORGANOID_versioned.clinical_gdc_r29

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r29

• isb-cgc-bq.TCGA_versioned.clinical_gdc_r29

• isb-cgc-bq.TCGA_versioned.clinical_diagnoses_treatments_gdc_r29

• isb-cgc-bq.VAREPOP_versioned.clinical_gdc_r29

• isb-cgc-bq.VAREPOP_versioned.clinical_diagnoses_treatments_gdc_r29

• isb-cgc-bq.VAREPOP_versioned.clinical_family_histories_gdc_r29

• isb-cgc-bq.WCDT_versioned.clinical_gdc_r29

Current clinical tables updated to GDC release 29.

BigQuery tables updated

• isb-cgc-bq.BEATAML1_0.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq.CGCI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.CMI.clinical_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.FM.clinical_gdc_current

• isb-cgc-bq.GENIE.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.MMRF.clinical_gdc_current

• isb-cgc-bq.MMRF.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.MMRF.clinical_family_histories_gdc_current

• isb-cgc-bq.MMRF.clinical_follow_ups_gdc_current

• isb-cgc-bq.MMRF.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.NCICCR.clinical_gdc_current

• isb-cgc-bq.OHSU.clinical_gdc_current

• isb-cgc-bq.ORGANOID.clinical_gdc_current

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.TCGA.clinical_gdc_current

• isb-cgc-bq.TCGA.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.VAREPOP.clinical_gdc_current

• isb-cgc-bq.VAREPOP.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.VAREPOP.clinical_family_histories_gdc_current

• isb-cgc-bq.WCDT.clinical_gdc_current

May 18, 2021

New file metadata tables added to isb-cgc-bq for GDC release 29 and New GENCODE annotation tables.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r29

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r29

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r29

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r29

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r29

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r29

• isb-cgc-bq.GENCODE_versioned.annotation_gtf_hg38_v38

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.GENCODE.annotation_gtf_hg38_current

April 14, 2021

New PDC Aliquot and Case Metadata tables.

BigQuery tables created

• isb-cgc-bq.PDC_metadata.aliquot_to_case_mapping_pdc_current

• isb-cgc-bq.PDC_metadata_versioned.aliquot_to_case_mapping_pdc_V1_11

• isb-cgc-bq.PDC_metadata.case_metadata_pdc_current

• isb-cgc-bq.PDC_metadata_versioned.case_metadata_pdc_V1_11

April 2, 2021

New GENCODE annotation tables.

BigQuery tables created

• isb-cgc-bq.GENCODE_versioned.annotation_gtf_hg38_v36

• isb-cgc-bq.GENCODE_versioned.annotation_gtf_hg38_v37

BigQuery tables updated

• isb-cgc-bq.GENCODE.annotation_gtf_hg38_current

March 30, 2021

New CPTAC miRNA expression tables.

BigQuery tables created

• isb-cgc-bq.CPTAC.miRNAseq_hg38_gdc_current

• isb-cgc-bq.CPTAC_versioned.miRNAseq_hg38_gdc_r28

March 22, 2021

New TARGET miRNA isoform expression tables.

BigQuery tables created

• isb-cgc-bq.TARGET_versioned.miRNAseq_isoform_hg38_gdc_r25

BigQuery tables updated

• isb-cgc-bq.TARGET.miRNAseq_isoform_hg38_gdc_current

March 17, 2021

New HCMI RNA Seq table

BigQuery tables created

• isb-cgc-bq.HCMI_versioned.RNAseq_hg38_gdc_r28

BigQuery tables updated

• isb-cgc-bq.HCMI.RNAseq_hg38_gdc_current

March 11, 2021

New HCMI Masked Somatic Mutation table

BigQuery tables created

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r28

BigQuery tables updated

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

March 5, 2021

New file metadata, per sample file metadata, and clinical tables added to isb-cgc-bq for GDC release 28.

BigQuery tables created

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r28

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r28

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r28

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r28

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r28

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r28

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r28

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r28

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r28

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r28

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r28

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r28

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r28

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r28

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r28

• isb-cgc-bq.CMI_versioned.clinical_gdc_r28

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r28

Current file metadata, per sample file metadata, and clinical tables updated to GDC release 28.

BigQuery tables updated

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.CMI.clinical_gdc_current

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

March 3, 2021

PDC metadata

• isb-cgc-bq.PDC_metadata.file_associated_entity_mapping_current

• isb-cgc-bq.PDC_metadata_versioned.file_associated_entity_mapping_V1_9

• isb-cgc-bq.PDC_metadata.file_metadata_current

• isb-cgc-bq.PDC_metadata_versioned.file_metadata_V1_9

February 25, 2021

New TARGET miRNA-seq table

BigQuery tables created

• isb-cgc-bq.TARGET_versioned.miRNAseq_hg38_gdc_r25

BigQuery tables updated

• isb-cgc-bq.TARGET.miRNAseq_hg38_gdc_current

February 18, 2021

Pediatric Brain Cancer Pilot Study clinical data from PDC

• isb-cgc-bq.CBTTC.clinical_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CBTTC_versioned.clinical_pediatric_brain_cancer_pdc_V1_9

• isb-cgc-bq.CBTTC.clinical_diagnoses_pediatric_brain_cancer_pdc_current

• isb-cgc-bq.CBTTC_versioned.clinical_diagnoses_pediatric_brain_cancer_pdc_V1_9

Hepatitis B Virus (HBV) Related Hepatocellular Carcinoma clinical data from PDC

• isb-cgc-bq.ICPC.clinical_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC_versioned.clinical_HBV_related_hepatocellular_carcinoma_pdc_V1_9

Proteogenomics of Gastric Cancer Proteome clinical data from PDC

• isb-cgc-bq.ICPC.clinical_human_early_onset_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC_versioned.clinical_human_early_onset_gastric_cancer_pdc_V1_9

Oral Squamous Cell Carcinoma clinical data from PDC

• isb-cgc-bq.ICPC.clinical_oral_squamous_cell_carcinoma_pdc_current

• isb-cgc-bq.ICPC_versioned.clinical_oral_squamous_cell_carcinoma_pdc_V1_9

Academia Sinica LUAD-100 clinical data from PDC

• isb-cgc-bq.ICPC.clinical_academia_sinica_LUAD_100_pdc_current

• isb-cgc-bq.ICPC_versioned.clinical_academia_sinica_LUAD_100_pdc_V1_9

Georgetown Lung Cancer Proteomics Study clinical data from PDC

• clinical_georgetown_lung_cancer_pdc_current

• clinical_georgetown_lung_cancer_pdc_V1_9

Quantitative digital maps of tissue biopsies clinical data from PDC

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies.clinical_pct_swath_kidney_pdc_current

• isb-cgc-bq.Quant_Maps_Tissue_Biopsies_versioned.clinical_pct_swath_kidney_pdc_V1_9

CPTAC clincal data from PDC

• isb-cgc-bq.TCGA.clinical_CPTAC_TCGA_pdc_current

• isb-cgc-bq.TCGA_versioned.clinical_CPTAC_TCGA_pdc_V1_9

• isb-cgc-bq.CPTAC.clinical_CPTAC_2_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC_2_pdc_V1_9

• isb-cgc-bq.CPTAC.clinical_CPTAC3_discovery_pdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_CPTAC3_discovery_pdc_V1_9

New CGCI and HCMI Masked Somatic Mutation tables

BigQuery tables created

• isb-cgc-bq.CGCI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.CGCI_versioned.masked_somatic_mutation_hg38_gdc_r27

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r27

BigQuery tables updated

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

February 1, 2021

New CTSP RNA Seq tables

BigQuery tables created

• isb-cgc-bq.CTSP.RNAseq_hg38_gdc_current

• isb-cgc-bq.CTSP_versioned.RNAseq_hg38_gdc_r23

January 12, 2021

New HCMI RNA Seq table

BigQuery tables created

• isb-cgc-bq.HCMI.RNAseq_hg38_gdc_r27

BigQuery tables updated

• isb-cgc-bq.HCMI.RNAseq_hg38_gdc_current

January 4, 2021

New TARGET RNA Seq tables

BigQuery tables created

• isb-cgc-bq.TARGET.RNAseq_hg38_gdc_current

• isb-cgc-bq.TARGET_versioned.RNAseq_hg38_gdc_r25

• isb-cgc-bq.TARGET_versioned.RNAseq_hg38_gdc_r26

December 17, 2020

New CPTAC Masked Somatic Mutation (MAF) tables.

BigQuery tables created

• isb-cgc-bq:CPTAC.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq:CPTAC_versioned.masked_somatic_mutation_hg38_gdc_r25

December 16, 2020

New per sample file metadata tables added to isb-cgc-bq for GDC release 27.

BigQuery tables created

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r27

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r27

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r27

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r27

Current per sample file metadata tables updated to GDC release 27.

BigQuery tables updated

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

December 14, 2020

New GDC release 27 file metadata tables.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r27

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r27

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r27

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r27

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r27

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r27

Current file metadata tables updated to GDC release 27.

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

December 9, 2020

New CPTAC RNA Seq tables

BigQuery tables created

• isb-cgc-bq.CPTAC.RNAseq_hg38_gdc_current

• isb-cgc-bq.CPTAC_versioned.RNAseq_hg38_gdc_r25

December 8, 2020

CPTAC2, CPTAC3, TCGA quant proteome data from PDC, released Sept. 2020.

BigQuery tables created

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_PNNL_pdc_current

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_PNNL_pdc_2020_09

• isb-cgc-bq.TCGA.quant_proteome_TCGA_ovarian_JHU_pdc_current

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_ovarian_JHU_pdc_2020_09

• isb-cgc-bq.TCGA.quant_proteome_TCGA_breast_cancer_pdc_current

• isb-cgc-bq.TCGA_versioned.quant_proteome_TCGA_breast_cancer_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_PNNL_qeplus_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_prospective_ovarian_JHU_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_ovarian_JHU_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_prospective_colon_PNNL_qeplus_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_colon_PNNL_qeplus_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_prospective_breast_BI_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_prospective_breast_BI_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_UCEC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_UCEC_discovery_study_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_LUAD_discovery_study_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_LUAD_discovery_study_pdc_2020_09

• isb-cgc-bq.CPTAC.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_current

• isb-cgc-bq.CPTAC_versioned.quant_proteome_CPTAC_CCRCC_discovery_study_pdc_2020_09

Pediatric Brain Cancer Pilot proteome study from PDC, released Sept. 2020.

• isb-cgc-bq.CBTTC.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_current

• isb-cgc-bq.CBTTC_versioned.quant_proteome_pediatric_brain_cancer_pilot_study_pdc_2020_09

Hepatitis B Virus (HBV) Related Hepatocellular Carcinoma Proteome study, released Sept. 2020.

• isb-cgc-bq.ICPC.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_current

• isb-cgc-bq.ICPC_versioned.quant_proteome_HBV_related_hepatocellular_carcinoma_pdc_2020_09

Proteogenomics of Gastric Cancer Proteome study, released Sept. 2020.

• isb-cgc-bq.ICPC.quant_proteome_proteogenomics_of_gastric_cancer_pdc_current

• isb-cgc-bq.ICPC_versioned.quant_proteome_proteogenomics_of_gastric_cancer_pdc_2020_09

December 2, 2020

Clinical data tables released for GDC release 27. Current clinical tables were updated to GDC release 27.

BigQuery tables created and updated

• isb-cgc-bq.MMRF.clinical_gdc_current

• isb-cgc-bq.MMRF_versioned.clinical_gdc_r27

• isb-cgc-bq.NCICCR.clinical_gdc_current

• isb-cgc-bq.NCICCR_versioned.clinical_gdc_r27

• isb-cgc-bq.OHSU.clinical_gdc_current

• isb-cgc-bq.OHSU_versioned.clinical_gdc_r27

• isb-cgc-bq.HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r27

• isb-cgc-bq.HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_treatments_gdc_r27

• isb-cgc-bq.ORGANOID.clinical_gdc_current

• isb-cgc-bq.ORGANOID_versioned.clinical_gdc_r27

• isb-cgc-bq.CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_treatments_gdc_r27

• isb-cgc-bq.MMRF.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.MMRF_versioned.clinical_diagnoses_treatments_gdc_r27

• isb-cgc-bq.MMRF.clinical_follow_ups_gdc_current

• isb-cgc-bq.MMRF_versioned.clinical_follow_ups_gdc_r27

• isb-cgc-bq.TCGA.clinical_gdc_current

• isb-cgc-bq.TCGA_versioned.clinical_gdc_r27

• isb-cgc-bq.TARGET.clinical_gdc_current

• isb-cgc-bq.TARGET_versioned.clinical_gdc_r27

• isb-cgc-bq.MMRF.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.MMRF_versioned.clinical_follow_ups_molecular_tests_gdc_r27

• isb-cgc-bq.GENIE.clinical_gdc_current

• isb-cgc-bq.GENIE_versioned.clinical_gdc_r27

• isb-cgc-bq.VAREPOP.clinical_gdc_current

• isb-cgc-bq.VAREPOP_versioned.clinical_gdc_r27

• isb-cgc-bq.CTSP.clinical_gdc_current

• isb-cgc-bq.CTSP_versioned.clinical_gdc_r27

• isb-cgc-bq.CGCI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r27

• isb-cgc-bq.VAREPOP.clinical_family_histories_gdc_current

• isb-cgc-bq.VAREPOP_versioned.clinical_family_histories_gdc_r27

• isb-cgc-bq.BEATAML1_0.clinical_gdc_current

• isb-cgc-bq.BEATAML1_0_versioned.clinical_gdc_r27

• isb-cgc-bq.MMRF.clinical_family_histories_gdc_current

• isb-cgc-bq.MMRF_versioned.clinical_family_histories_gdc_r27

• isb-cgc-bq.WCDT.clinical_gdc_current

• isb-cgc-bq.WCDT_versioned.clinical_gdc_r27

• isb-cgc-bq.VAREPOP.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.VAREPOP_versioned.clinical_diagnoses_treatments_gdc_r27

• isb-cgc-bq.HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq.HCMI_versioned.clinical_diagnoses_gdc_r27

• isb-cgc-bq.CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq.CGCI_versioned.clinical_diagnoses_gdc_r27

• isb-cgc-bq.CGCI.clinical_gdc_current

• isb-cgc-bq.CGCI_versioned.clinical_gdc_r27

• isb-cgc-bq.CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq.CGCI_versioned.clinical_follow_ups_gdc_r27

• isb-cgc-bq.TCGA.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq.TCGA_versioned.clinical_diagnoses_treatments_gdc_r27

• isb-cgc-bq.CPTAC.clinical_gdc_current

• isb-cgc-bq.CPTAC_versioned.clinical_gdc_r27

• isb-cgc-bq.HCMI.clinical_gdc_current

• isb-cgc-bq.HCMI_versioned.clinical_gdc_r27

• isb-cgc-bq.CMI.clinical_gdc_current

• isb-cgc-bq.CMI_versioned.clinical_gdc_r27

• isb-cgc-bq.FM.clinical_gdc_current

• isb-cgc-bq.FM_versioned.clinical_gdc_r27

• isb-cgc-bq.HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq.HCMI_versioned.clinical_follow_ups_gdc_r27

November 16, 2020

New TARGET controlled-access VCF tables.

BigQuery tables created

• isb-cgc-cbq.TARGET.vcf_hg38_gdc_current

• isb-cgc-cbq.TARGET_versioned.vcf_hg38_gdc_r22

October 30, 2020

RNA Seq data tables released for the WCDT program.

BigQuery tables created

• isb-cgc-bq:WCDT.RNAseq_hg38_gdc_current

• isb-cgc-bq:WCDT_versioned.RNAseq_hg38_gdc_r22

October 23, 2020

Clinical data tables released for GDC release 25 and 26.

BigQuery tables created

• isb-cgc-bq:BEATAML1_0_versioned.clinical_gdc_r25

• isb-cgc-bq:CGCI_versioned.clinical_gdc_r25

• isb-cgc-bq:CGCI_versioned.clinical_diagnoses_gdc_r25

• isb-cgc-bq:CGCI_versioned.clinical_diagnoses_treatments_gdc_r25

• isb-cgc-bq:CGCI_versioned.clinical_follow_ups_gdc_r25

• isb-cgc-bq:CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r25

• isb-cgc-bq:CPTAC_versioned.clinical_gdc_r25

• isb-cgc-bq:CTSP_versioned.clinical_gdc_r25

• isb-cgc-bq:FM_versioned.clinical_gdc_r25

• isb-cgc-bq:GENIE_versioned.clinical_gdc_r25

• isb-cgc-bq:HCMI_versioned.clinical_gdc_r25

• isb-cgc-bq:HCMI_versioned.clinical_diagnoses_gdc_r25

• isb-cgc-bq:HCMI_versioned.clinical_diagnoses_treatments_gdc_r25

• isb-cgc-bq:HCMI_versioned.clinical_follow_ups_gdc_r25

• isb-cgc-bq:HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r25

• isb-cgc-bq:MMRF_versioned.clinical_gdc_r25

• isb-cgc-bq:MMRF_versioned.clinical_diagnoses_treatments_gdc_r25

• isb-cgc-bq:MMRF_versioned.clinical_family_histories_gdc_r25

• isb-cgc-bq:MMRF_versioned.clinical_follow_ups_gdc_r25

• isb-cgc-bq:MMRF_versioned.clinical_follow_ups_molecular_tests_gdc_r25

• isb-cgc-bq:NCICCR_versioned.clinical_gdc_r25

• isb-cgc-bq:OHSU_versioned.clinical_gdc_r25

• isb-cgc-bq:ORGANOID_versioned.clinical_gdc_r25

• isb-cgc-bq:TARGET_versioned.clinical_gdc_r25

• isb-cgc-bq:TCGA_versioned.clinical_gdc_r25

• isb-cgc-bq:TCGA_versioned.clinical_diagnoses_treatments_gdc_r25

• isb-cgc-bq:VAREPOP_versioned.clinical_gdc_r25

• isb-cgc-bq:VAREPOP_versioned.clinical_diagnoses_treatments_gdc_r25

• isb-cgc-bq:VAREPOP_versioned.clinical_family_histories_gdc_r25

• isb-cgc-bq:WCDT_versioned.clinical_gdc_r25

• isb-cgc-bq:BEATAML1_0_versioned.clinical_gdc_r26

• isb-cgc-bq:CGCI_versioned.clinical_gdc_r26

• isb-cgc-bq:CGCI_versioned.clinical_diagnoses_gdc_r26

• isb-cgc-bq:CGCI_versioned.clinical_diagnoses_treatments_gdc_r26

• isb-cgc-bq:CGCI_versioned.clinical_follow_ups_gdc_r26

• isb-cgc-bq:CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r26

• isb-cgc-bq:CMI_versioned.clinical_gdc_r26

• isb-cgc-bq:CPTAC_versioned.clinical_gdc_r26

• isb-cgc-bq:CTSP_versioned.clinical_gdc_r26

• isb-cgc-bq:FM_versioned.clinical_gdc_r26

• isb-cgc-bq:GENIE_versioned.clinical_gdc_r26

• isb-cgc-bq:HCMI_versioned.clinical_gdc_r26

• isb-cgc-bq:HCMI_versioned.clinical_diagnoses_gdc_r26

• isb-cgc-bq:HCMI_versioned.clinical_diagnoses_treatments_gdc_r26

• isb-cgc-bq:HCMI_versioned.clinical_follow_ups_gdc_r26

• isb-cgc-bq:HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_diagnoses_treatments_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_family_histories_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_follow_ups_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_follow_ups_molecular_tests_gdc_r26

• isb-cgc-bq:NCICCR_versioned.clinical_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_gdc_r26

• isb-cgc-bq:NCICCR_versioned.clinical_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_gdc_r26

• isb-cgc-bq:NCICCR_versioned.clinical_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_diagnoses_treatments_gdc_r26

• isb-cgc-bq:NCICCR_versioned.clinical_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_diagnoses_treatments_gdc_r26

• isb-cgc-bq:NCICCR_versioned.clinical_family_histories_gdc_r26

• isb-cgc-bq:MMRF_versioned.clinical_gdc_r26

• isb-cgc-bq:CMI.clinical_gdc_current

Current clinical tables were updated to GDC release 26.

BigQuery tables updated

• isb-cgc-bq:BEATAML1_0.clinical_gdc_current

• isb-cgc-bq:CGCI.clinical_gdc_current

• isb-cgc-bq:CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq:CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq:CGCI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq:CPTAC.clinical_gdc_current

• isb-cgc-bq:CTSP.clinical_gdc_current

• isb-cgc-bq:FM.clinical_gdc_current

• isb-cgc-bq:GENIE.clinical_gdc_current

• isb-cgc-bq:HCMI.clinical_gdc_current

• isb-cgc-bq:HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq:HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq:HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq:MMRF.clinical_gdc_current

• isb-cgc-bq:MMRF.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:MMRF.clinical_family_histories_gdc_current

• isb-cgc-bq:MMRF.clinical_follow_ups_gdc_current

• isb-cgc-bq:MMRF.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq:NCICCR.clinical_gdc_current

• isb-cgc-bq:MMRF.clinical_gdc_current

• isb-cgc-bq:NCICCR.clinical_gdc_current

• isb-cgc-bq:MMRF.clinical_gdc_current

• isb-cgc-bq:NCICCR.clinical_gdc_current

• isb-cgc-bq:MMRF.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:NCICCR.clinical_gdc_current

• isb-cgc-bq:MMRF.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:NCICCR.clinical_family_histories_gdc_current

• isb-cgc-bq:MMRF.clinical_gdc_current

RNA Seq data tables released for the CMI program.

BigQuery tables created

• isb-cgc-bq:CMI.RNAseq_hg38_gdc_current

• isb-cgc-bq:CMI_versioned.RNAseq_hg38_gdc_r26

October 21, 2020

RNA Seq data tables released for the CGCI program.

BigQuery tables created

• isb-cgc-bq:CGCI.RNAseq_hg38_gdc_current

• isb-cgc-bq:CGCI_versioned.RNAseq_hg38_gdc_r24

October 15, 2020

Current file metadata tables updated to GDC release 26.

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

October 14, 2020

New GDC release 26 file metadata tables.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r26

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r26

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r26

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r26

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r26

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r26

New per sample file metadata tables added to isb-cgc-bq for GDC release 26.

BigQuery tables created

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r26

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r26

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r26

• isb-cgc-bq.CMI_versioned.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.CMI.per_sample_file_metadata_hg38_gdc_current

Current per sample file metadata tables updated to GDC release 26.

BigQuery tables updated

• isb-cgc-bq.WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.HCMI.per_sample_file_metadata_hg38_gdc_r26

• isb-cgc-bq.BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq.CCLE.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TARGET.per_sample_file_metadata_hg19_gdc_current

• isb-cgc-bq.TCGA.per_sample_file_metadata_hg19_gdc_current

October 06, 2020

New per sample file metadata tables added to isb-cgc-bq for GDC release 25.

BigQuery tables created

• isb-cgc-bq.WCDT_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.GENIE_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.OHSU_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.FM_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.CTSP_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.MMRF_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.CGCI_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.HCMI_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg38_gdc_r25

• isb-cgc-bq.CCLE_versioned.per_sample_file_metadata_hg19_gdc_r25

• isb-cgc-bq.TARGET_versioned.per_sample_file_metadata_hg19_gdc_r25

• isb-cgc-bq.TCGA_versioned.per_sample_file_metadata_hg19_gdc_r25

October 02, 2020

Open Somatic Mutation data tables released for the HCMI program.

BigQuery tables created

• isb-cgc-bq.HCMI.masked_somatic_mutation_hg38_gdc_current

• isb-cgc-bq.HCMI_versioned.masked_somatic_mutation_hg38_gdc_r23

The new COSMIC release v92 data is available in BigQuery.

BigQuery tables created

• isb-cgc-bq.COSMIC.ASCAT_purity_ploidy_grch37_current

• isb-cgc-bq.COSMIC.ASCAT_purity_ploidy_grch38_current

• isb-cgc-bq.COSMIC.breakpoints_grch37_current

• isb-cgc-bq.COSMIC.breakpoints_grch38_current

• isb-cgc-bq.COSMIC.cancer_gene_census_grch37_current

• isb-cgc-bq.COSMIC.cancer_gene_census_grch38_current

• isb-cgc-bq.COSMIC.cancer_gene_census_hallmarks_of_cancer_grch37_current

• isb-cgc-bq.COSMIC.cancer_gene_census_hallmarks_of_cancer_grch38_current

• isb-cgc-bq.COSMIC.classification_grch37_current

• isb-cgc-bq.COSMIC.classification_grch38_current

• isb-cgc-bq.COSMIC.complete_CNA_grch37_current

• isb-cgc-bq.COSMIC.complete_CNA_grch38_current

• isb-cgc-bq.COSMIC.complete_differential_methylation_grch37_current

• isb-cgc-bq.COSMIC.complete_differential_methylation_grch38_current

• isb-cgc-bq.COSMIC.complete_gene_expression_grch37_current

• isb-cgc-bq.COSMIC.complete_gene_expression_grch38_current

• isb-cgc-bq.COSMIC.complete_targeted_screens_mutant_grch37_current

• isb-cgc-bq.COSMIC.complete_targeted_screens_mutant_grch38_current

• isb-cgc-bq.COSMIC.fusion_grch37_current

• isb-cgc-bq.COSMIC.fusion_grch38_current

• isb-cgc-bq.COSMIC.genome_screens_mutant_grch37_current

• isb-cgc-bq.COSMIC.genome_screens_mutant_grch38_current

• isb-cgc-bq.COSMIC.HGNC_grch37_current

• isb-cgc-bq.COSMIC.HGNC_grch38_current

• isb-cgc-bq.COSMIC.mutant_census_grch37_current

• isb-cgc-bq.COSMIC.mutant_census_grch38_current

• isb-cgc-bq.COSMIC.mutant_grch37_current

• isb-cgc-bq.COSMIC.mutant_grch38_current

• isb-cgc-bq.COSMIC.mutation_tracking_grch37_current

• isb-cgc-bq.COSMIC.mutation_tracking_grch38_current

• isb-cgc-bq.COSMIC.NCV_grch37_current

• isb-cgc-bq.COSMIC.NCV_grch38_current

• isb-cgc-bq.COSMIC.resistance_mutations_grch37_current

• isb-cgc-bq.COSMIC.resistance_mutations_grch38_current

• isb-cgc-bq.COSMIC.sample_grch37_current

• isb-cgc-bq.COSMIC.sample_grch38_current

• isb-cgc-bq.COSMIC.structural_variants_grch37_current

• isb-cgc-bq.COSMIC.structural_variants_grch38_current

• isb-cgc-bq.COSMIC.transcripts_grch37_current

• isb-cgc-bq.COSMIC.transcripts_grch38_current

• isb-cgc-bq.COSMIC_versioned.ASCAT_purity_ploidy_grch37_v92

• isb-cgc-bq.COSMIC_versioned.ASCAT_purity_ploidy_grch38_v92

• isb-cgc-bq.COSMIC_versioned.breakpoints_grch37_v92

• isb-cgc-bq.COSMIC_versioned.breakpoints_grch38_v92

• isb-cgc-bq.COSMIC_versioned.cancer_gene_census_grch37_v92

• isb-cgc-bq.COSMIC_versioned.cancer_gene_census_grch38_v92

• isb-cgc-bq.COSMIC_versioned.cancer_gene_census_hallmarks_of_cancer_grch37_v92

• isb-cgc-bq.COSMIC_versioned.cancer_gene_census_hallmarks_of_cancer_grch38_v92

• isb-cgc-bq.COSMIC_versioned.classification_grch37_v92

• isb-cgc-bq.COSMIC_versioned.classification_grch38_v92

• isb-cgc-bq.COSMIC_versioned.complete_CNA_grch37_v92

• isb-cgc-bq.COSMIC_versioned.complete_CNA_grch38_v92

• isb-cgc-bq.COSMIC_versioned.complete_differential_methylation_grch37_v92

• isb-cgc-bq.COSMIC_versioned.complete_differential_methylation_grch38_v92

• isb-cgc-bq.COSMIC_versioned.complete_gene_expression_grch37_v92

• isb-cgc-bq.COSMIC_versioned.complete_gene_expression_grch38_v92

• isb-cgc-bq.COSMIC_versioned.complete_targeted_screens_mutant_grch37_v92

• isb-cgc-bq.COSMIC_versioned.complete_targeted_screens_mutant_grch38_v92

• isb-cgc-bq.COSMIC_versioned.fusion_grch37_v92

• isb-cgc-bq.COSMIC_versioned.fusion_grch38_v92

• isb-cgc-bq.COSMIC_versioned.genome_screens_mutant_grch37_v92

• isb-cgc-bq.COSMIC_versioned.genome_screens_mutant_grch38_v92

• isb-cgc-bq.COSMIC_versioned.HGNC_grch37_v92

• isb-cgc-bq.COSMIC_versioned.HGNC_grch38_v92

• isb-cgc-bq.COSMIC_versioned.mutant_census_grch37_v92

• isb-cgc-bq.COSMIC_versioned.mutant_census_grch38_v92

• isb-cgc-bq.COSMIC_versioned.mutant_grch37_v92

• isb-cgc-bq.COSMIC_versioned.mutant_grch38_v92

• isb-cgc-bq.COSMIC_versioned.mutation_tracking_grch37_v92

• isb-cgc-bq.COSMIC_versioned.mutation_tracking_grch38_v92

• isb-cgc-bq.COSMIC_versioned.NCV_grch37_v92

• isb-cgc-bq.COSMIC_versioned.NCV_grch38_v92

• isb-cgc-bq.COSMIC_versioned.resistance_mutations_grch37_v92

• isb-cgc-bq.COSMIC_versioned.resistance_mutations_grch38_v92

• isb-cgc-bq.COSMIC_versioned.sample_grch37_v92

• isb-cgc-bq.COSMIC_versioned.sample_grch38_v92

• isb-cgc-bq.COSMIC_versioned.structural_variants_grch37_v92

• isb-cgc-bq.COSMIC_versioned.structural_variants_grch38_v92

• isb-cgc-bq.COSMIC_versioned.transcripts_grch37_v92

• isb-cgc-bq.COSMIC_versioned.transcripts_grch38_v92

September 21, 2020

Current file metadata tables updated to GDC release 25.

BigQuery tables updated

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

September 18, 2020

New GDC release 25 file metadata tables.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r25

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r25

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r25

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r25

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r25

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r25

September 8, 2020

Table generated as part of an analysis for a poster submitted to the ACM-BCB2020 conference.

BigQuery tables created

• isb-cgc-bq.supplementary_tables.Abdilleh_etal_ACM_BCB_2020_TCGA_bioclin_v0_Clinical_UNPIVOT

September 2, 2020

New GENCODE data, version 34 and 35.

BigQuery tables created

• isb-cgc-bq.GENCODE_versioned.annotation_gtf_hg38_v34

• isb-cgc-bq.GENCODE_versioned.annotation_gtf_hg38_v35

• isb-cgc-bq.GENCODE.annotation_gtf_hg38_current

August 28, 2020

New GDC release 24 clinical tables.

BigQuery tables created

• isb-cgc-bq:BEATAML1_0.clinical_gdc_current

• isb-cgc-bq:BEATAML1_0_versioned.clinical_gdc_r24

• isb-cgc-bq:CGCI.clinical_diagnoses_gdc_current

• isb-cgc-bq:CGCI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:CGCI.clinical_follow_ups_gdc_current

• isb-cgc-bq:CGCI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq:CGCI.clinical_gdc_current

• isb-cgc-bq:CGCI_versioned.clinical_diagnoses_gdc_r24

• isb-cgc-bq:CGCI_versioned.clinical_diagnoses_treatments_gdc_r24

• isb-cgc-bq:CGCI_versioned.clinical_follow_ups_gdc_r24

• isb-cgc-bq:CGCI_versioned.clinical_follow_ups_molecular_tests_gdc_r24

• isb-cgc-bq:CGCI_versioned.clinical_gdc_r24

• isb-cgc-bq:CPTAC.clinical_gdc_current

• isb-cgc-bq:CPTAC_versioned.clinical_gdc_r24

• isb-cgc-bq:CTSP.clinical_gdc_current

• isb-cgc-bq:CTSP_versioned.clinical_gdc_r24

• isb-cgc-bq:FM.clinical_gdc_current

• isb-cgc-bq:FM_versioned.clinical_gdc_r24

• isb-cgc-bq:GENIE.clinical_gdc_current

• isb-cgc-bq:GENIE_versioned.clinical_gdc_r24

• isb-cgc-bq:HCMI.clinical_diagnoses_gdc_current

• isb-cgc-bq:HCMI.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:HCMI.clinical_follow_ups_gdc_current

• isb-cgc-bq:HCMI.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq:HCMI.clinical_gdc_current

• isb-cgc-bq:HCMI_versioned.clinical_diagnoses_gdc_r24

• isb-cgc-bq:HCMI_versioned.clinical_diagnoses_treatments_gdc_r24

• isb-cgc-bq:HCMI_versioned.clinical_follow_ups_gdc_r24

• isb-cgc-bq:HCMI_versioned.clinical_follow_ups_molecular_tests_gdc_r24

• isb-cgc-bq:HCMI_versioned.clinical_gdc_r24

• isb-cgc-bq:MMRF.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:MMRF.clinical_family_histories_gdc_current

• isb-cgc-bq:MMRF.clinical_follow_ups_gdc_current

• isb-cgc-bq:MMRF.clinical_follow_ups_molecular_tests_gdc_current

• isb-cgc-bq:MMRF.clinical_gdc_current

• isb-cgc-bq:MMRF_versioned.clinical_diagnoses_treatments_gdc_r24

• isb-cgc-bq:MMRF_versioned.clinical_family_histories_gdc_r24

• isb-cgc-bq:MMRF_versioned.clinical_follow_ups_gdc_r24

• isb-cgc-bq:MMRF_versioned.clinical_follow_ups_molecular_tests_gdc_r24

• isb-cgc-bq:MMRF_versioned.clinical_gdc_r24

• isb-cgc-bq:NCICCR.clinical_gdc_current

• isb-cgc-bq:NCICCR_versioned.clinical_gdc_r24

• isb-cgc-bq:OHSU.clinical_gdc_current

• isb-cgc-bq:OHSU_versioned.clinical_gdc_r24

• isb-cgc-bq:ORGANOID.clinical_gdc_current

• isb-cgc-bq:ORGANOID_versioned.clinical_gdc_r24

• isb-cgc-bq:TARGET.clinical_gdc_current

• isb-cgc-bq:TARGET_versioned.clinical_gdc_r24

• isb-cgc-bq:TCGA.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:TCGA.clinical_gdc_current

• isb-cgc-bq:TCGA_versioned.clinical_diagnoses_treatments_gdc_r24

• isb-cgc-bq:TCGA_versioned.clinical_gdc_r24

• isb-cgc-bq:VAREPOP.clinical_diagnoses_treatments_gdc_current

• isb-cgc-bq:VAREPOP.clinical_family_histories_gdc_current

• isb-cgc-bq:VAREPOP.clinical_gdc_current

• isb-cgc-bq:VAREPOP_versioned.clinical_diagnoses_treatments_gdc_r24

• isb-cgc-bq:VAREPOP_versioned.clinical_family_histories_gdc_r24

• isb-cgc-bq:VAREPOP_versioned.clinical_gdc_r24

• isb-cgc-bq:WCDT.clinical_gdc_current

• isb-cgc-bq:WCDT_versioned.clinical_gdc_r24

July 23, 2020

New TCGA controlled-access MAF tables. New TARGET GDC release 22 RNAseq and miRNAseq tables.

BigQuery tables created

• isb-cgc-cbq:TCGA.maf_hg38_gdc_current

• isb-cgc-cbq:TCGA_versioned.maf_hg38_gdc_r14

• isb-cgc-bq:TARGET_versioned.miRNAseq_hg38_gdc_r22

• isb-cgc-bq:TARGET_versioned.RNAseq_hg38_gdc_r22

• isb-cgc-bq:TARGET.miRNAseq_hg38_gdc_current

• isb-cgc-bq:TARGET.RNAseq_hg38_gdc_current

July 21, 2020

New HCMI RNA seq table.

BigQuery tables created

• isb-cgc.HCMI.RNAseq_hg38_gdc_r23

July 9, 2020

New per sample file metadata tables added to isb-cgc-bq for GDC release 24.

BigQuery tables created

• isb-cgc-bq:BEATAML1_0.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:BEATAML1_0_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:TCGA.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:TCGA_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:TARGET.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:TARGET_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:GENIE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:GENIE_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:CGCI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:CGCI_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:CPTAC.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:CPTAC_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:CTSP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:CTSP_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:FM.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:FM_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:HCMI.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:HCMI_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:MMRF.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:MMRF_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:NCICCR.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:NCICCR_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:OHSU.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:OHSU_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:ORGANOID.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:ORGANOID_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:VAREPOP.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:VAREPOP_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:WCDT.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:WCDT_versioned.per_sample_file_metadata_hg38_gdc_r24

• isb-cgc-bq:CCLE.per_sample_file_metadata_hg38_gdc_current

• isb-cgc-bq:CCLE_versioned.per_sample_file_metadata_hg38_gdc_r24

Existing GDC Release 24 file metadata tables in the isb-cgc project were copied to the isb-cgc-bq project.

BigQuery tables created

• isb-cgc-bq.GDC_case_file_metadata_versioned.slide2caseIDmap_r24

• isb-cgc-bq.GDC_case_file_metadata_versioned.GDCfileID_to_GCSurl_r24

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_legacy_r24

• isb-cgc-bq.GDC_case_file_metadata_versioned.fileData_active_r24

• isb-cgc-bq.GDC_case_file_metadata_versioned.caseData_r24

• isb-cgc-bq.GDC_case_file_metadata_versioned.aliquot2caseIDmap_r24

• isb-cgc-bq.GDC_case_file_metadata.slide2caseIDmap_current

• isb-cgc-bq.GDC_case_file_metadata.GDCfileID_to_GCSurl_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_legacy_current

• isb-cgc-bq.GDC_case_file_metadata.fileData_active_current

• isb-cgc-bq.GDC_case_file_metadata.caseData_current

• isb-cgc-bq.GDC_case_file_metadata.aliquot2caseIDmap_current

June 16, 2020

The new COSMIC release v91 data is available in BigQuery.

BigQuery tables created

• isb-cgc:COSMIC_v91_grch37.ASCAT_Purity_Ploidy

• isb-cgc:COSMIC_v91_grch37.Breakpoints

• isb-cgc:COSMIC_v91_grch37.Cancer_Gene_Census

• isb-cgc:COSMIC_v91_grch37.Complete_CNA

• isb-cgc:COSMIC_v91_grch37.Complete_Differential_Methylation

• isb-cgc:COSMIC_v91_grch37.Complete_Gene_Expression

• isb-cgc:COSMIC_v91_grch37.Complete_Targeted_Screens_Mutant

• isb-cgc:COSMIC_v91_grch37.Fusion

• isb-cgc:COSMIC_v91_grch37.Genome_Screens_Mutant

• isb-cgc:COSMIC_v91_grch37.HGNC

• isb-cgc:COSMIC_v91_grch37.Mutant

• isb-cgc:COSMIC_v91_grch37.Mutant_Census

• isb-cgc:COSMIC_v91_grch37.Mutation_Tracking

• isb-cgc:COSMIC_v91_grch37.NCV

• isb-cgc:COSMIC_v91_grch37.Resistance_Mutations

• isb-cgc:COSMIC_v91_grch37.Sample

• isb-cgc:COSMIC_v91_grch37.Structural_Variants

• isb-cgc:COSMIC_v91_grch37.Transcripts

• isb-cgc:COSMIC_v91_grch38.ASCAT_Purity_Ploidy

• isb-cgc:COSMIC_v91_grch38.Breakpoints

• isb-cgc:COSMIC_v91_grch38.Cancer_Gene_Census

• isb-cgc:COSMIC_v91_grch38.Classification

• isb-cgc:COSMIC_v91_grch38.Complete_CNA

• isb-cgc:COSMIC_v91_grch38.Complete_Differential_Methylation

• isb-cgc:COSMIC_v91_grch38.Complete_Gene_Expression

• isb-cgc:COSMIC_v91_grch38.Complete_Targeted_Screens_Mutant

• isb-cgc:COSMIC_v91_grch38.Fusion

• isb-cgc:COSMIC_v91_grch38.Genome_Screens_Mutant

• isb-cgc:COSMIC_v91_grch38.HGNC

• isb-cgc:COSMIC_v91_grch38.Mutant

• isb-cgc:COSMIC_v91_grch38.Mutant_Census

• isb-cgc:COSMIC_v91_grch38.Mutation_Tracking

• isb-cgc:COSMIC_v91_grch38.NCV

• isb-cgc:COSMIC_v91_grch38.Resistance_Mutations

• isb-cgc:COSMIC_v91_grch38.Sample

• isb-cgc:COSMIC_v91_grch38.Structural_Variants

• isb-cgc:COSMIC_v91_grch38.Transcripts

June 09, 2020

New GDC file ID to GCS url tables added to isb-cgc for GDC release 24.

BigQuery tables created

• isb-cgc:GDC_metadata.rel24_GDCfileID_to_GCSurl

May 28, 2020

New data set and RNA Sequence table derived data tables added to isb-cgc.

BigQuery tables created

• isb-cgc:TARGET.RNAseq_hg38_r22

May 27, 2020

PanCancer tables were added to the isb-cgc project. The Pan-Cancer Atlas tables include clinical, methylation, RPPA and copy number data.

BigQuery tables created

The following tables were created under the isb-cgc:pancer-altas data set:

• BarcodeMap

• clinical_PANCAN_patient_with_followup

• EBpp_AdjustPANCAN_IlluminaHiSeq_RNASeqV2_genExp

• Filtered_all_CNVR_data_by_gene

• Filtered_clinical_PANCAN_patient_with_followup

• Filtered_EBpp_AdjustPANCAN_IlluminaHiSeq_RNASeqV2_genExp

• Filtered_jhu_usc_edu_PANCAN_HumanMethylation27_betaValue_whitelisted

• Filtered_jhu_usc_edu_PANCAN_HumanMethylation450_betaValue_whitelisted

• Filtered_jhu_usc_edu_PANCAN_merged_HumanMethylation27_HumanMethylation450_betaValue_whitelisted

• Filtered_MC3_MAF_V5_one_per_tumor_sample

• Filtered_pancanMiRs_EBadjOnProtocolPlatformWithoutRepsWithUnCorrectMiRs_08_04_16

• Filtered_TCGA_RPPA_pancan_clean

• jhu_usc_edu_PANCAN_HumanMethylation27_betaValue_whitelisted

• jhu_usc_edu_PANCAN_HumanMethylation450_betaValue_whitelisted

• jhu_usc_edu_PANCAN_merged_HumanMethylation27_HumanMethylation450_betaValue_whitelisted

• merged_sample_quality_annotations

• pancanMiRs_EBadjOnProtocolPlatformWithoutRepsWithUnCorrectMiRs_08_04_16

• TCGA_CDR

• TCGA_RPPA_pancan_clean

• Whitelist_ParticipantBarcodes

GDC data release 24.0 was released on May 7, 2020.

Updates to existing programs and projects

• 110 new cases were released from the HNSCC cohort of CPTAC-3. This includes WXS, WGS, RNA-Seq and miRNA-Seq data.

• Aliquot-level WXS MAFs are now available from the following projects: CPTAC-2 and CPTAC-3

BigQuery tables created

• isb-cgc:GDC_metadata.rel24_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel24_caseData

• isb-cgc:GDC_metadata.rel24_fileData_active

• isb-cgc:GDC_metadata.rel24_fileData_legacy

• isb-cgc:GDC_metadata.rel24_slide2caseIDmap

New programs and projects available in Google Cloud Storage

• New project released: CGCI-HTMCP-CC - HIV+ Tumor Molecular Characterization Project - Cervical Cancer

• RNA-Seq: Alignments and gene expression levels

• miRNA-Seq: Alignments and miRNA expression levels

• WGS: Alignments

• Targeted Sequencing: Alignments

New data sets and RNA Sequence tables derived data tables added to isb-cgc.

BigQuery tables created

• isb-cgc:BEATAML1_0.RNA_hg38_r19

• isb-cgc:ORGANOID.RNA_hg38_r18

May 8, 2020

GDC data release 23.0 was posted on April 7, 2020.

Updates to existing programs and projects

• HCMI-CMDC Aliquot-level MAFs were released

• TARGET-ALL-P2 Aliquot-level MAFs were released

• TARGET-ALL-P3 Aliquot-level MAFs were released

• TARGET-AML Aliquot-level MAFs were released

• TARGET-NBL Aliquot-level MAFs were released

• TARGET-OS Aliquot-level MAFs were released

• TARGET-WT Aliquot-level MAFs were released

• All TCGA Projects Copy number segment and estimate files from SNP6 ASCAT were released

• TARGET-ALL-P2 Copy number segment and estimate files from SNP6 ASCAT were released

• TARGET-AML Copy number segment and estimate files from SNP6 ASCAT were released

• HCMI-CMDC RNA-seq data was released

• CGCI-BLGSP clinical data was updated

• HCMI-CMDC clinical data was updated

• WCDT-MCRPC clinical data was updated

BigQuery tables created

• isb-cgc:GDC_metadata.rel23_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel23_caseData

• isb-cgc:GDC_metadata.rel23_fileData_active

• isb-cgc:GDC_metadata.rel23_fileData_legacy

• isb-cgc:GDC_metadata.rel23_slide2caseIDmap

• isb-cgc:GDC_metadata.rel23_GDCfileID_to_GCSurl

March 16, 2020

GDC data release 22.0 was posted on January 16, 2020.

New programs and projects available in Google Cloud Storage

• WCDT-MCRPC (Genomic Characterization of Metastatic Castration Resistant Prostate Cancer), RNA-Seq and WGS Data included

Updates to existing programs and projects

• HCMI-CMDC new RNA-Seq, WXS, WGS data was released.

• CPTAC-3 new WXS, WGS, and RNA-Seq data and miRNA-Seq data for currently released cases was released

BigQuery tables created

• isb-cgc:GDC_metadata.rel22_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel22_caseData

• isb-cgc:GDC_metadata.rel22_fileData_active

• isb-cgc:GDC_metadata.rel22_fileData_legacy

• isb-cgc:GDC_metadata.rel22_slide2caseIDmap

• isb-cgc:GDC_metadata.rel22_GDCfileID_to_GCSurl

January 11, 2020

GDC data release 21.0 was posted on December 10, 2019.

New programs and projects available in Google Cloud Storage

• GENIE-MDA

• GENIE-VICC

• GENIE-DFCI

• GENIE-MSK

• GENIE-UHN

• GENIE-JHU

• GENIE-GRCC

• GENIE-NKI

BigQuery tables created

• isb-cgc:GDC_metadata.rel21_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel21_caseData

• isb-cgc:GDC_metadata.rel21_fileData_active

• isb-cgc:GDC_metadata.rel21_fileData_legacy

• isb-cgc:GDC_metadata.rel21_slide2caseIDmap

December 20, 2019

GDC data release 19.0 was posted on September 17, 2019.

GDC data release 19.1 was posted on November 6, 2019.

New programs and projects available in Google Cloud Storage

• BEATAML1.0-COHORT (Functional Genomic Landscape of Acute Myeloid Leukemia) WXS and RNA-Seq data was included.

Updates to existing programs and projects

• TARGET-ALL-P1 new RNA-Seq data was released.

• TARGET-ALL-P2 new RNA-Seq, WXS, and miRNA-Seq data was released.

• TARGET-ALL-P3 new miRNA-Seq data was released.

• TARGET-AML new WXS and WGS data was released.

• TARGET-NBL new WXS and RNA-Seq data was released.

• TARGET-RT new WGS and RNA-Seq data was released.

• TARGET-WT new WGS, WXS, and RNA-Seq data was released.

• CGCI-BLGSP new WGS data was released.

• TARGET-ALL-P3 new Pindel VCFs was released.

• MMRF new Pindel VCFs was released.

• HCMI new Pindel VCFs was released.

• CPTAC-3 new Pindel VCFs was released.

• Disease-specific staging properties for many projects released.

BigQuery tables created

• isb-cgc:GDC_metadata.rel19_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel19_caseData

• isb-cgc:GDC_metadata.rel19_fileData_active

• isb-cgc:GDC_metadata.rel19_fileData_legacy

• isb-cgc:GDC_metadata.rel19_slide2caseIDmap

GDC data release 18 was posted on July 8, 2019.

New programs and projects available in Google Cloud Storage

• ORGANOID-PANCREATIC (Pancreas Cancer Organoid Profiling)

• MMRF-COMMPASS (Multiple Myeloma CoMMpass Study)

• CGCI-BLGSP (Burkitt Lymphoma Genome Sequencing Project)

• TARGET-ALL-P1 (Acute Lymphoblastic Leukemia - Phase I)

• TARGET-ALL-P2 (Acute Lymphoblastic Leukemia - Phase II)

Updates to existing programs and projects

• TARGET-ALL-P3 new RNA-Seq data was released.

• TARGET-CCSK new RNA-Seq data was released.

• TARGET-OS new RNA-Seq data was released.

BigQuery tables created

• isb-cgc:GDC_metadata.rel18_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel18_caseData

• isb-cgc:GDC_metadata.rel18_fileData_active

• isb-cgc:GDC_metadata.rel18_fileData_legacy

• isb-cgc:GDC_metadata.rel18_slide2caseIDmap

September 29, 2019

GDC data release 17.0 was posted on June 5, 2019.

GDC data release 17.1 was posted on June 12, 2019.

New programs and projects available in Google Cloud Storage

• HCMI-CMDC 500 files, 2.8TB

• BEATAML1.0-CRENOLANIB 700 files, 3.6TB

Updates to existing programs and projects

• CPTAC-3 RNA-Seq - 7400 files, 16.6 TB

• TCGA ATAC-Seq - 820 files, 9.2 TB

• NCICCR-DLBCL RNA-Seq - 2900 files, 11.9 TB

• CTSP-DLBCL1 RNA-Seq - 250 files, .96TB

• Updates to TCGA clinical data

• Migrations of three properties across all projects from diagnosis to demographic (vital_status, days_to_birth, days_to_death)

BigQuery tables created

• isb-cgc:GDC_metadata.rel17_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel17_caseData

• isb-cgc:GDC_metadata.rel17_fileData_active

• isb-cgc:GDC_metadata.rel17_fileData_legacy

• isb-cgc:GDC_metadata.rel17_slide2caseIDmap

April 4, 2019

GDC data release 16 was posted on March 26, 2019.

New programs and projects available in Google Cloud Storage

• CPTAC-3

BigQuery tables created

• isb-cgc:GDC_metadata.rel16_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel16_caseData

• isb-cgc:GDC_metadata.rel16_fileData_active

• isb-cgc:GDC_metadata.rel16_fileData_legacy

• isb-cgc:GDC_metadata.rel16_slide2caseIDmap

March 6, 2019

GDC data release 15 was posted on February 20, 2019.

New programs and projects available in Google Cloud Storage

• TARGET-ALL-P3

BigQuery tables created

• isb-cgc:GDC_metadata.rel15_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel15_caseData

• isb-cgc:GDC_metadata.rel15_fileData_current

• isb-cgc:GDC_metadata.rel15_fileData_legacy

• isb-cgc:GDC_metadata.rel15_slide2caseIDmap

January 4, 2019

GDC data release 14 was posted on December 18, 2018.

New programs and projects available in Google Cloud Storage

• FM-AD

BigQuery tables created

• isb-cgc:GDC_metadata.rel14_aliquot2caseIDmap

• isb-cgc:GDC_metadata.rel14_caseData

• isb-cgc:GDC_metadata.rel14_fileData_current

• isb-cgc:GDC_metadata.rel14_fileData_legacy

• isb-cgc:GDC_metadata.rel14_GDCfileID_to_GCSurl

• isb-cgc:GDC_metadata.rel14_GDCfileID_to_GCSurl_NEW

• isb-cgc:GDC_metadata.rel14_slide2caseIDmap

• isb-cgc:TCGA_hg38_data_v0.miRNAseq_Expression

• isb-cgc:TCGA_hg38_data_v0.miRNAseq_Isoform_Expression

October 2, 2018

GDC data release 13 was posted on September 27, 2018.

New programs and projects available in Google Cloud Storage

• VAREPOP-APOLLO

• CTSP-DLBCL1

• NCICCR-DLBCL

DR13, active archive contains 428,543 files (DR12 contained 356,381 files)

• 116 files were removed: 88 VCF files, 24 BAM files, and 2 miRNA “mirnas.quantification” files and (corresponding) 2 miRNA “isoforms.quantification” files.

• 72278 files were added: 47248 BAI files, 23203 TBI files, 1287 BAM files, 504 SEG files, 36 SVS files.

June 25, 2018:

GDC data release 12 was posted on Wednesday, June 13, 2018.

• There is absolutely no change in the legacy archive data between DR11 and DR12

• There is also no change in the total number of cases in either archive

• The number of files in the current archive has increased from 329,165 to 356,381:

• 67,220 files were removed

• 94,436 files were added

More details about the changes to the current archive of TCGA data:

Copy Number Variation | Genotyping Array | TXT files:

• 22376 Copy Number Segment files replaced (ie removed and added)

• 22376 Masked Copy Number Segment files replaced

Biospecimen | BCR XML files:

• 11294 files replaced

Clinical | BCR XML files:

• 11160 files removed / 11167 files added (ie 7 extra files)

Biospecimen | Diagnostic Slide | SVS files:

• 11730 Slide Image files added

Biospecimen | BCR SSF XML files:

• 10557 Biospecimen Supplement files added

Biospecimen | BCR Auxiliary XML files:

• 2884 Biospecimen Supplement files added

Clinical | BCR OMF XML files:

• 1051 Clinical Supplement files added

Biospecimen | BCR Biotab files:

• 340 Biospecimen Supplement files added

Clinical | BCR Biotab files:

• 226 Clinical Supplement files added

Simple Nucleotide Variation | WXS | VCF | Varscan2 files :

• 1 Raw Simple Somatic Mutation file removed (2017-03-04)

• 1 Annotated Somatic Mutation file removed (2017-06-17)

Both for ESCA samples:

TCGA-VR-A8ET-01A-11D-A403-09;TCGA-VR-A8ET-10B-01D-A403-09

For TARGET data:

RNA-Seq data:

• 3 BAM files and 9 Gene Expression Quantification files removed

• Sample barcodes: TARGET-30-PAKYZS-01A-01R, TARGET-30-PAMEZH-01A-01R, TARGET-30-PANRRW-01A-01R

• Raw CGI Variant | WGS | Combined Nucleotide Variation | VCF files:435 files added

June 4, 2018:

The metadata tables for GDC data release 11 are now available in BigQuery.

May 8, 2018:

The gnomAD database (release 2.0.2, dated October 2017) is now available in BigQuery! isb-cgc:genome_reference.gnomAD_20171003_GRCh37.

April 30, 2018:

Recently released (2018-04-01) ClinVar VCFs are now available in BigQuery! Two new tables (ClinVar_20180401_GRCh37 and ClinVar_20180401_GRCh38) can be found in our genome_reference dataset; also available is dbSNP build 151 (announced 2018-04-24): isb-cgc:genome_reference.dbSNP_b151_GRCh37p13_All.

February 22, 2018:

A genenames_mapping table has been added to our numerous reference sources in BigQuery to simplify mapping between HGNC IDs, HGNC symbols, Entrez Gene IDs, Ensembl Gene IDs, Pubmed IDs, and RefSeq IDs!

June 9, 2018:

The metadata tables for GDC data release 10 are now available in BigQuery.

May 8, 2018:

The release 85 of the COSMIC database is now available in BigQuery.

February 13, 2018:

The release 84 of the COSMIC database is now available in BigQuery.

December 19, 2017:

The ISB-CGC cohort metadata has been update to reflect the new and update TARGET gene expression data provided by the GDC in their data release 9.

December 6, 2017:

The GDC release 9 included some updated and new TARGET gene expression data. The BigQuery table isb-cgc:TARGET_hg38_data_v0.RNAseq_Gene_Expression has been updated to reflect this.

November 7, 2017:

The release 83 of the COSMIC database is now available in BigQuery.

November 3, 2017:

The metadata tables for GDC data release 9 are now available in BigQuery.

October 30, 2017:

The ‘harmonized’ hg38 TCGA VCF files (raw and annotated) are now available in the ISB-CGC controlled-data repository in Google Cloud Storage.

August 30, 2017:

The hg38 TARGET VCF files (raw and annotated) are now available in the ISB-CGC controlled-data repository in Google Cloud Storage.

August 3, 2017:

Release 82 of the COSMIC database is now available in BigQuery.

June 30, 2017:

The genome sequence hg19 and hg38 TARGET WXS, RNA-Seq, and miRNA-Seq BAM files are now available in the ISB-CGC controlled-data repository in Google Cloud Storage.

May 9, 2017:

Release 81 of the COSMIC database is now available in BigQuery.

May 5, 2017:

A table mapping between UniProtKB accessions and identifiers has been added to our reference dataset: isb-cgc:genome_reference.UniProtKB_idmapping.

April 10, 2017:

We have re-organized our TCGA clinical, biospecimen, and molecular data into new datasets in BigQuery.

Please find them below:

• isb-cgc:TCGA_bioclin_v0

• isb-cgc:TCGA_hg19_data_v0

• isb-cgc:TCGA_hg38_data_v0

The hg19 data can also be found in the GDC’s legacy archive, while the hg38 data is available at the GDC data portal.

March 30, 2017:

The ‘harmonized’ hg38 TCGA miRNA-Seq BAM files from the initial GDC data release are now available in the ISB-CGC controlled-data repository in Google Cloud Storage.

February 20, 2017:

In collaboration with the Sanger Institute, the COSMIC database is now available in BigQuery (registered users only).

February 5, 2017:

Genomic coordinates (in GFF3 format) for human microRNAs added for miRBase v20 and v21 to the isb-cgc:genome_reference BigQuery dataset.

January 30, 2017:

The final, unified “MC3” TCGA somatic mutations call set is available in the BigQuery. isb-cgc:hg19_data_previews dataset (also available on Synapse).

January 10, 2017:

miRBase_v20 table added to the isb-cgc:genome_reference BigQuery dataset.

January 4, 2017:

Ensembl gene-set releases 75 (GRCh37) and 87 (GRCh38) are now also available in the isb-cgc:genome_reference BigQuery dataset.

December 30, 2016:

The ‘harmonized’ hg38 TCGA WXS BAM files and RNA-Seq BAM files from the initial GDC data release (1.0), as well as the legacy hg19. TCGA ‘Level 2’ Genome-Wide SNP6 array genotype files (‘birdseed’) files are now available in the ISB-CGC controlled-data repository in Google Cloud Storage.

November 14, 2016:

TCGA radiology and tissue slide images are now available in Google Cloud Storage! This includes radiology images (DICOM files) from the Cancer Imaging Archive (TCIA) and tissue slide images from the NCI-GDC data portal (SVS files).

November 16, 2016:

TCGA proteomics data from the CPTAC (Phase II) is now available in Google Cloud Storage.

September 10, 2016:

GENCODE versions 19, 22, 23, and 24 are all now available in the isb-cgc:genome_reference BigQuery dataset, with an updated and more complete schema. – Note also that the naming convention is now GENCODE_v19 rather than GENCODE_r19; also that v19 is the last version based on hg19/GRCh37, and all subsequent versions are based on hg38/GRCh38.

August 31, 2016:

A table based on the latest liftOver hg19-to-hg38 chain files is available in the isb-cgc:tcga_genome_reference BigQuery dataset.

August 26, 2016:

A set of tables based on running Picard over ~67,000 TCGA bam files in GCS have been added to the isb-cgc:tcga_seq_metadata BigQuery dataset: information contained in these tables includes bam-index stats, insert-size metrics, quality-distribution metrics, and quality-yield metrics – these tables can be used in conjunction with the FastQC-based tables to look for bam and/or fastq data files that meet your analysis criteria.

August 21, 2016:

New miRBase_v21 table added to the isb-cgc:genome_reference BigQuery dataset.

August 20, 2016:

Updated hg19 and hg38 Kaviar tables added to the isb-cgc:genome_reference BigQuery dataset.

August 17, 2016:

New isb-cgc:GDC_metadata BigQuery dataset containing metadata for both legacy and current files hosted at the NCI-GDC.

July 28, 2016:

New isb-cgc:tcga_201607_beta BigQuery dataset based on the final TCGA data upload from the DCC. This dataset largely mirrors the previous isb-cgc:tcga_20510_alpha dataset and is now also supporting the ISB-CGC Web-App. The curated TCGA cohort tables in the isb-cgc:tcga_cohorts BigQuery dataset have also been updated.

June 24, 2016:

An updated listing of all ISB-CGC hosted data in Google Cloud Storage (GCS) is now available in the GCS_listing_24jun2016 table in the isb-cgc:tcga_seq_metadata dataset in BigQuery, in addition the CGHub_Manifest_24jun2016 table contains the final CGHub Manifest prior to the transition of all data to the Genomic Data Commons.

June 18, 2016:

New GENCODE_r24 table added to the isb-cgc:genome_reference BigQuery dataset.

May 13, 2016:

New NCBI_Viral_Annotations_Taxid10239 table added to the isb-cgc:genome_reference BigQuery dataset.

May 9, 2016:

New Ensembl2Reactome and miRBase2Reactome tables added to the isb-cgc:genome_reference BigQuery dataset.

May 3, 2016:

New isb-cgc:tcga_seq_metadata BigQuery dataset contains metadata and FastQC metrics for thousands of TCGA DNA-seq and RNA-seq data files: - CGHub_Manifest table contains metadata for all TCGA files at CGHub as of April 27th, 2016 - GCS_listing_27apr2016 table contains metadata for all TCGA files hosted by ISB-CGC in GCS - RNAseq_FastQC table contains metrics derived from FastQC runs on the RNAseq data files, including urls to the FastQC html reports that you can cut and paste directly into your browser - WXS_FastQC table contains metrics derived from FastQC runs on the exome DNAseq data files

April 28, 2016

GO_Ontology and GO_Annotations tables added to the isb-cgc:genome_reference BigQuery dataset.

March 14, 2016

With the release of our Web-App, controlled-data is now accessible (programmatically) to users who have previously obtained dbGaP approval for TCGA data and go through the NIH authentication process built-in to the Web-App.

February 26, 2016

New CCLE dataset in BigQuery isb-cgc:ccle_201602_alpha includes sample metadata, mutation calls, copy-number segments, and expression data (metadata includes full cloud-storage-path for world-readable BAM and SNP CEL files, and Genomics dataset- and readgroupset-ids for sequence data imported into Google Genomics).

February 22, 2016

Kaviar database now available in the isb-cgc:genome_reference BigQuery dataset.

February 19, 2016

CCLE RNAseq and DNAseq bam files imported into Google Genomics.

January 10, 2016

GENCODE_r19 and miRBase_v20 tables added to the isb-cgc:genome_reference BigQuery dataset.

December 26, 2015

Public release of new isb-cgc:genome_reference BigQuery dataset: the first table is based on the just-published miRTarBase release 6.1.

December, 12, 2015

Curated TCGA cohort lists available in isb-cgc:tcga_cohorts BigQuery dataset.

December 3, 2015

Version v0.1.

First tagged release of the web-app.

November 16, 2015

Initial upload of data from CGHub into Google Cloud Storage (GCS) complete (not publicly released).

November 2, 2015

First public release of TCGA open-access data in BigQuery tables.

• isb-cgc:tcga_201510_alpha dataset contains updated set of BigQuery tables, based on data available at the TCGA DCC as of October 2015

• Includes Annotations table with information about redacted samples, etc

• isb-cgc:platform_reference contains annotation information for the Illumina DNA Methylation platform

October 4, 2015

Complete data upload from TCGA DCC, including controlled-access data

September 21, 2015

Draft set of BigQuery tables (not publicly released)

• isb-cgc:tcga_201507_alpha dataset containing clinical, biospecimen, somatic mutation calls and Level-3 TCGA data available at the TCGA DCC as of July 2015

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