EvidenceLib · Cancer study catalog

458 public cancer genomics studies, one place to find them

Name: EvidenceLib cancer study catalog
Creator: EvidenceHelix
License: http://opendatacommons.org/licenses/odbl/1.0/

Study titles, descriptions, cancer-type codes and citations from cBioPortal DataHub, with links back to every original study. This is a catalog of what studies exist, not a count of mutations or patients, and it contains no patient-level data.

Browse by cancer family

Showing 458 of 458 studies

Acinar Cell Carcinoma of the Pancreas (JHU, J Pathol 2014)
Whole exome sequencing of 23 surgically resected pancreatic carcinomas with acinar differentiation and their matched normals.

PancreasOther published and consortium studiesSource code paacPubMed 1
Acral Melanoma (TGEN, Genome Res 2017)
Whole exome sequencing and transcriptome analysis of 34 Acral Melanoma patients (33 with matched normals).

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2015)
Comprehensive profiling of infant MLL-rearranged acute lymphoblastic leukemia (MLL-R ALL)

Blood, lymph and bone marrowOther published and consortium studiesSource code bllPubMed 1
Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2016)
Whole-genome and/or whole-exome sequencing of ERG-altered B-ALL tumor/normal pairs.

Blood, lymph and bone marrowOther published and consortium studiesSource code bllPubMed 1
Acute Myeloid Leukemia (OHSU, Cancer Cell 2022)
Whole-exome and transcriptomic sequencing of 942 acute myeloid leukemia samples (with 500 matched normals) from the Beat AML program.

Blood, lymph and bone marrowOther published and consortium studiesSource code amlPubMed 1
Acute Myeloid Leukemia (OHSU, Nature 2018)
Whole-exome sequencing of 672 acute myeloid leukemia samples (with 454 matched normals) from the Beat AML program.

Blood, lymph and bone marrowOther published and consortium studiesSource code amlPubMed 1
Acute Myeloid Leukemia (TCGA, Firehose Legacy)
TCGA Acute Myeloid Leukemia. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LAML/20160128/). Previously known as TCGA Provisional.

Blood, lymph and bone marrowTCGA Firehose LegacySource code aml
Acute Myeloid Leukemia (TCGA, NEJM 2013)
Whole-genome or whole-exome sequencing analysis of 200 adult de novo AML tumor/normal pairs. TCGA Acute Myeloid Leukemia Project; raw data at the NCI (https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseTy…

Blood, lymph and bone marrowTCGA (other releases)Source code amlPubMed 1
Acute Myeloid Leukemia (TCGA, PanCancer Atlas)
Acute Myeloid Leukemia TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/p…

Blood, lymph and bone marrowTCGA PanCancer AtlasSource code amlPubMed 11
Acute myeloid leukemia or myelodysplastic syndromes (WashU, 2016)
Enhanced exome or targeted sequencing of 116 acute myeloid leukemia (AML) or myelodysplastic syndromes (MDS) patients' tumor/normal pairs .

Blood, lymph and bone marrowOther published and consortium studiesSource code mnmPubMed 1
Adenoid Cystic Carcinoma (FMI, Am J Surg Pathl. 2014)
Targeted Sequencing of 28 metastatic Adenoid Cystic Carcinoma samples.

Head and neckOther published and consortium studiesSource code acycPubMed 1
Adenoid Cystic Carcinoma (JHU, Cancer Prev Res 2016)
Whole-genome or whole-exome sequencing of 25 adenoid cystic carcinoma tumor/normal pairs.

Head and neckOther published and consortium studiesSource code acycPubMed 1
Adenoid Cystic Carcinoma (MDA, Clin Cancer Res 2015)
WGS of 21 salivary ACCs and targeted molecular analyses of a validation set (81 patients).

Head and neckOther published and consortium studiesSource code acycPubMed 1
Adenoid Cystic Carcinoma (MSK, Nat Genet 2013)
Whole-exome or whole-genome sequencing analysis of 60 ACC tumor/normal pairs

Head and neckMSK studiesSource code acycPubMed 1
Adenoid Cystic Carcinoma (Sanger/MDA, JCI 2013)
Whole exome sequencing of 24 ACCs.

Head and neckOther published and consortium studiesSource code acycPubMed 1
Adenoid Cystic Carcinoma of the Breast (MSK, J Pathol. 2015)
Whole exome sequencing of 12 breast AdCCs.

BreastMSK studiesSource code acbcPubMed 1
Adenoid Cystic Carcinoma Project (J Clin Invest 2019)
Multi-Institute Cohort of 1045 Adenoid Cystic Carcinoma patients.

Head and neckOther published and consortium studiesSource code acycPubMed 1
Adrenocortical Carcinoma (TCGA, Firehose Legacy)
TCGA Adrenocortical Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/ACC/20160128/). Previously known as TCGA Provisional.

Thyroid and endocrineTCGA Firehose LegacySource code acc
Adrenocortical Carcinoma (TCGA, PanCancer Atlas)
Adrenocortical Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas…

Thyroid and endocrineTCGA PanCancer AtlasSource code accPubMed 11
Adult Soft Tissue Sarcomas (TCGA, Cell 2017)
Whole-exome sequencing of 206 Adult Soft Tissue Sarcoma tumor/normal pairs.

Sarcoma and soft tissueTCGA (other releases)Source code soft_tissuePubMed 1
Ampullary Carcinoma (Baylor College of Medicine, Cell Reports 2016)
Exome sequencing analysis of 160 cancers arising in the periampullary region, 62 of these clearly arising from either the bile duct (n = 44) or the duodenum (n = 18) and 98 for which the epithelium of origin could not…

Liver, bile duct and gallbladderOther published and consortium studiesSource code ampcaPubMed 1
Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytoma (MSK, Neuro Oncol 2017)
IMPACT sequencing of 22 Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytomas.

Brain and nervous systemMSK studiesSource code difgPubMed 1
Anaplastic Thyroid Cancers (GATCI, Cell Reports 2024)
Whole-genome or whole-exome sequencing of 190 anaplastic thyroid carcinoma (ATC) and co-occurring differentiated thyroid carcinoma (DTC) samples.

Thyroid and endocrineOther published and consortium studiesSource code thyroidPubMed 1
Appendiceal Cancer (MSK, J Clin Oncol 2022)
Targeted sequencing of 273 appendiceal tumor/normal pairs via MSK-IMPACT platform.

Multiple or not classified from the titleMSK studiesSource code apadPubMed 1
Atypical Small Cell Lung Cancer (MSK, Cancer Discov 2024)
Targeted sequencing of 31 atypical small cell lung cancers lacking RB1 and TP53 co-inactivation and their matched normals via MSK-IMPACT, including structural variant analysis via whole-genome sequencing. This data is…

Lung and pleuraMSK studiesSource code lungPubMed 1
Basal Cell Carcinoma (UNIGE, Nat Genet 2016)
Whole-exome sequencing of 126 basal cell carcinoma tumor/normal pairs; targeted sequencing of 163 sporadic samples (40 tumor/normal pairs) and 4 Gorlin symdrome basal cell carcinomas.

Skin and eyeOther published and consortium studiesSource code bccPubMed 1
Bladder Cancer (Columbia University/MSK, Cell 2018)
Targeted sequencing of 130 bladder cancer tumors, organoids and xenografts and their matched normals via MSK-IMPACT.

Kidney and bladderMSK studiesSource code bladderPubMed 1
Bladder Cancer (MSK, Cell Reports 2022)
Targeted sequencing of 1659 Bladder Cancer tumor/normal samples via MSK-IMPACT.

Kidney and bladderMSK studiesSource code bladderPubMed 1
Bladder Cancer (MSK, Clin Cancer Res 2023)
Targeted sequencing of 526 bladder tumors and their matched normals via MSK-IMPACT.

Kidney and bladderMSK studiesSource code bladderPubMed 1
Bladder Cancer (MSK, Eur Urol 2014)
Genomic Predictors of Survival in Patients with High-grade Urothelial Carcinoma of the Bladder. Targeted sequencing of 109 tumor samples (MSKCC, European Urology 2014).

Kidney and bladderMSK studiesSource code blcaPubMed 1
Bladder Cancer (MSK, J Clin Onco 2013)
Comprehensive profiling of 97 high-grade bladder tumors, including targeted sequencing of 15 cancer genes

Kidney and bladderMSK studiesSource code blcaPubMed 1
Bladder Cancer (MSK, Nat Genet 2016)
Whole exome and targeted sequencing of 34 plasmacytoid-variant (signet ring cell) tumors of the bladder

Kidney and bladderMSK studiesSource code blcaPubMed 1
Bladder Cancer (MSK/TCGA, 2020)
Whole-exome or targeted sequencing of 476 muscle-invasive bladder tumor/normal pairs via TCGA or MSK-IMPACT sequencing.

Kidney and bladderTCGA (other releases)Source code blcaPubMed 1
Bladder Cancer (TCGA, Cell 2017)
Whole-exome sequencing of 412 muscle-invasive bladder tumors and matched normal samples.

Kidney and bladderTCGA (other releases)Source code blcaPubMed 1
Bladder Urothelial Carcinoma (BGI, Nat Genet 2013)
Whole-exome and whole-genome sequencing of 99 bladder cancer tumor/normal pairs. Generated by BGI.

Kidney and bladderOther published and consortium studiesSource code blcaPubMed 1
Bladder Urothelial Carcinoma (DFCI/MSK, Cancer Discov 2014)
Whole exome sequencing of tumor/normal samples from 50 patients treated with cisplatin-based chemotherapy for muscle invasive urothelial carcinoma.

Kidney and bladderMSK studiesSource code blcaPubMed 1
Bladder Urothelial Carcinoma (TCGA, Firehose Legacy)
TCGA Bladder Urothelial Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BLCA/20160128/). Previously known as TCGA Provisional.

Kidney and bladderTCGA Firehose LegacySource code blca
Bladder Urothelial Carcinoma (TCGA, Nature 2014)
Whole-exome sequencing of 131 high-grade muscle-invasive urothelial bladder carcinomas

Kidney and bladderTCGA (other releases)Source code blcaPubMed 1
Bladder Urothelial Carcinoma (TCGA, PanCancer Atlas)
Bladder Urothelial Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancancera…

Kidney and bladderTCGA PanCancer AtlasSource code blcaPubMed 11
Bladder Urothelial Carcinoma SWOG S1314 Trial (MSK, JCO Precis Oncol 2024)
Targeted sequencing of 184 muscle-invasive bladder cancer (MIBC) samples and their matched normals using MSK-IMPACT.

Kidney and bladderMSK studiesSource code blcaPubMed 1
BRAF Fusions - ARCHER Clinical Sequencing Cohort (MSK, Clin Cancer Res 2024)
Targeted sequencing of 107 clinical cases via ARCHER to characterize the structure and impact of BRAF fusions on clinical course in a tumor-agnostic approach. This study is part of a broader analysis and is complement…

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
BRAF Fusions - IMPACT Clinical Sequencing Cohort (MSK, Clin Cancer Res 2024)
Targeted sequencing of 105 clinical cases via MSK-IMPACT to characterize the structure and impact of BRAF fusions on clinical course in a tumor-agnostic approach. This study is part of a broader analysis and is comple…

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Brain Lower Grade Glioma (TCGA, Firehose Legacy)
TCGA Brain Lower Grade Glioma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LGG/20160128/). Previously known as TCGA Provisional.

Brain and nervous systemTCGA Firehose LegacySource code difg
Brain Lower Grade Glioma (TCGA, PanCancer Atlas)
Brain Lower Grade Glioma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas…

Brain and nervous systemTCGA PanCancer AtlasSource code difgPubMed 12
Brain Tumor PDXs (Mayo Clinic, Clin Cancer Res 2020)
WES on a total of 106 PDXs and 80 PDXs have the matched germline (blood) samples sequenced. A total of 66 PDXs have RNASeq available

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 1
Breast Cancer (HTAN, 2022)
An omic and multidimensional spatial (OMS) atlas generated from four serial biopsies of an individual with metastatic breast cancer during 3.5 years of therapy. This resource links detailed, longitudinal clinical meta…

BreastOther published and consortium studiesSource code brcaPubMed 1
Breast Cancer (METABRIC, Nature 2012 & Nat Commun 2016)
Targeted sequencing of 2509 primary breast tumors with 548 matched normals.

BreastOther published and consortium studiesSource code brcaPubMed 3
Breast Cancer (MSK, Cancer Cell 2018)
Targeted Sequencing of tumor/normal sample pairs from 1918 Breast cancers.

BreastMSK studiesSource code breastPubMed 1
Breast Cancer (MSK, Clinical Cancer Res 2020)
Whole-exome and MSK-IMPACT sequencing of 60 tumor/normal matched samples.

BreastMSK studiesSource code brcaPubMed 1
Breast Cancer (MSK, Nature Cancer 2020)
Targeted sequencing of pre- and post-treatment tumor/cfDNA samples from 51 Breast Cancer patients to understand the mechanisms of resistance to Alepelisib.

BreastMSK studiesSource code breastPubMed 1
Breast Cancer (MSK, NPJ Breast Cancer 2019)
Targeted Sequencing of buparlisib + letrozole and alpelisib + letrozole-treated metastatic ER+ unmatched breast tumors.

BreastMSK studiesSource code brcaPubMed 1
Breast Cancer (SMC 2018)
Whole-exome sequencing of 187 primary tumors from a Korean breast cancer cohort (SMC).

BreastOther published and consortium studiesSource code brcaPubMed 1
Breast Cancer Xenografts (British Columbia, Nature 2015)
Whole genome/targeted sequencing to evaluate the clonal dynamics in 116 breast cancer patient xenografts.

BreastOther published and consortium studiesSource code brcaPubMed 1
Breast Fibroepithelial Tumors (Duke-NUS, Nat Genet 2015)
Whole exome sequencing of 22 phyllodes tumors

BreastOther published and consortium studiesSource code bfnPubMed 1
Breast Invasive Carcinoma (British Columbia, Nature 2012)
Whole genome/exome sequencing analysis of 65 breast cancer samples

BreastOther published and consortium studiesSource code brcaPubMed 1
Breast Invasive Carcinoma (Broad, Nature 2012)
Whole-exome sequencing of 103 breast cancer tumor/normal sample pairs. Generated by the Broad Institute.

BreastOther published and consortium studiesSource code brcaPubMed 1
Breast Invasive Carcinoma (Sanger, Nature 2012)
Whole exome sequencing from 100 breast cancer tumor/normal sample pairs. Generated by the Sanger Institute.

BreastOther published and consortium studiesSource code brcaPubMed 1
Breast Invasive Carcinoma (TCGA, Cell 2015)
Whole-exome sequencing of 817 Breast Invasive Carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Breast Invasive Carcinoma Project.

BreastTCGA (other releases)Source code brcaPubMed 1
Breast Invasive Carcinoma (TCGA, Firehose Legacy)
TCGA Breast Invasive Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/). Previously known as TCGA Provisional.

BreastTCGA Firehose LegacySource code brca
Breast Invasive Carcinoma (TCGA, Nature 2012)
Whole-exome sequencing (510 samples with matched normals), genomic DNA copy number arrays, DNA methylation, messenger RNA arrays, microRNA sequencing and reverse-phase protein arrays analysis on 825 primary breast can…

BreastTCGA (other releases)Source code brcaPubMed 1
Breast Invasive Carcinoma (TCGA, PanCancer Atlas)
Breast Invasive Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratla…

BreastTCGA PanCancer AtlasSource code brcaPubMed 12
Breast Invasive Lobular Carcinoma (MSK, NPJ Precis Oncol 2024)
Targeted Sequencing of 25 breast invasive lobular carcinoma tumors lacking CDH1 bi-allelic genetic alterations, and their matched normals via MSK-IMPACT.

BreastMSK studiesSource code breastPubMed 1
Cancer Cell Line Encyclopedia (Broad, 2019)
Cancer Cell Line Encyclopedia from the Broad Institute and Novartis, updated 2019. Data downloaded from the Broad CCLE Portal (https://portals.broadinstitute.org/ccle/data). For more info about the proteomics data, se…

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 2
Cancer Cell Line Encyclopedia (Broad, Nat Rev Cancer 2025)
Whole genome and whole exome sequencing of 1,981 pancancer samples from the Cancer Cell Line Encyclopedia (CCLE). CCLE from Broad Institute and Novartis, 2025 (25Q3) update. Data downloaded from the Depmap Portal (htt…

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Cancer Cell Line Encyclopedia (Genentech, Nat biotech 2014)
Single-nucleotide polymorphism (SNP) array analysis and RNA sequencing and of 675 mixed human cancer cell lines from the Cancer Cell Line Encyclopedia.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Cancer Cell Line Encyclopedia (Novartis/Broad, Nature 2012)
Targeted sequencing of 1020 samples from Cancer Cell Line Encyclopedia from the Broad Institute and Novartis.

GynecologicOther published and consortium studiesSource code mixedPubMed 1
Cancer Therapy and Clonal Hematopoiesis (MSK, Blood Adv 2023)
Targeted sequencing of 47,532 patient samples with mixed tumor types and their matched normals to identify clonal hematopoiesis mutations using MSK-IMPACT.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Cancer Therapy and Clonal Hematopoiesis (MSK, Clin Cancer Res 2022)
Clonal hematopoiesis mutations identified in blood samples from patients whose tumor-blood pairs were analyzed using MSK-IMPACT.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Cancer Therapy and Clonal Hematopoiesis (MSK, Nat Genet 2020)
Clonal hematopoiesis mutations identified in blood samples from 24,146 patients whose tumor-blood pairs were analyzed using MSK-IMPACT.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Cerebrospinal Fluid Circulating Tumor DNA (MSK, Acta Neuropathol Commun 2024)
Targeted sequencing of 1,007 cerebrospinal fluid circulating tumor DNA from patients with central nervous system tumors using MSK-IMPACT and their matched normals.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Cervical Cancer (MSK, Clin Cancer Res 2023)
Targeted sequencing of 177 cervical tumors and their matched normal samples via MSK-IMPACT.

GynecologicMSK studiesSource code cervixPubMed 1
Cervical Squamous Cell Carcinoma (TCGA, PanCancer Atlas)
Cervical Squamous Cell Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancan…

GynecologicTCGA PanCancer AtlasSource code cescPubMed 12
Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA, Firehose Legacy)
TCGA Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/CESC/20160128/). Previously known as TCGA Provisional.

GynecologicTCGA Firehose LegacySource code cesc
China Pan-cancer (OrigiMed, Nature 2022)
Landscape of genomic alterations in 10,194 solid tumors from the Chinese population

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Cholangiocarcinoma (ICGC, Cancer Discov 2017)
Whole-exome sequencing and Targeted/Exome sequencing of 489 Cholangiocarcinoma samples from 10 countries.

Liver, bile duct and gallbladderOther published and consortium studiesSource code cholPubMed 1
Cholangiocarcinoma (MSK, Clin Cancer Res 2018)
Targeted sequencing (MSK-IMPACT) of 195 tumor samples (194 with matched normals) from 192 cholangiocarcinoma patients.

Liver, bile duct and gallbladderMSK studiesSource code cholPubMed 1
Cholangiocarcinoma (National Cancer Centre of Singapore, Nat Genet 2013)
Whole exome sequencing of 15 cholangiocarcinoma cases.

Liver, bile duct and gallbladderOther published and consortium studiesSource code cholPubMed 1
Cholangiocarcinoma (National University of Singapore, Nat Genet 2012)
Exome Sequencing for Opisthorchis viverrini-related cholangiocarcinoma in 8 O.viverrini-related tumors and matched normal tissue.

Liver, bile duct and gallbladderOther published and consortium studiesSource code cholPubMed 1
Cholangiocarcinoma (TCGA, Firehose Legacy)
TCGA Cholangiocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/CHOL/20160128/). Previously known as TCGA Provisional.

Liver, bile duct and gallbladderTCGA Firehose LegacySource code chol
Cholangiocarcinoma (TCGA, PanCancer Atlas)
Cholangiocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/panca…

Liver, bile duct and gallbladderTCGA PanCancer AtlasSource code cholPubMed 11
Chronic Lymphocytic Leukemia (Broad, Cell 2013)
Whole-exome sequencing of 160 CLL tumor/normal pairs.

Blood, lymph and bone marrowOther published and consortium studiesSource code cllsllPubMed 1
Chronic Lymphocytic Leukemia (Broad, Nature 2015)
Whole exome sequencing of 537 chronic lymphocytic leukemia tumor/normal pairs.

Blood, lymph and bone marrowOther published and consortium studiesSource code cllsllPubMed 1
Chronic Lymphocytic Leukemia (Broad, Nature Genetics 2022)
Whole genome and whole exome sequencing of 1,154 samples from 1,148 patients with Chronic Lymphocytic Leukemia and monoclonal B cell lymphocytosis and their matched normals.

Blood, lymph and bone marrowOther published and consortium studiesSource code cllsllPubMed 1
Chronic lymphocytic leukemia (ICGC, Nature Genetics 2011)
Whole-exome sequencing of 105 Chronic Lymphocytic Leukemia samples.

Blood, lymph and bone marrowOther published and consortium studiesSource code cllsllPubMed 1
Chronic Lymphocytic Leukemia (IUOPA, Nature 2015)
Mutation data from whole-genome or whole-exome sequencing of 428 CLL, 54 MBL, and 24 SLL tumor/normal pairs.

Blood, lymph and bone marrowOther published and consortium studiesSource code cllsllPubMed 1
Classical Hodgkins Lymphoma (SCCC, Blood Cancer Discov 2023)
Whole-exome sequencing of 36 cases and whole-genome sequencing of 25 cases of classical hodgkins lymphomas and their matched normals.

Blood, lymph and bone marrowOther published and consortium studiesSource code chlPubMed 1
Clear Cell Renal Cell Carcinoma (DFCI, Science 2019)
Whole-exome sequencing of metastatic clear cell renal carcinoma (ccRCC) from 35 tumor/normal pairs.

Kidney and bladderOther published and consortium studiesSource code ccrccPubMed 1
Colon Adenocarcinoma (CaseCCC, PNAS 2015)
Whole-exome sequencing of tumor/normal pairs from 29 African American Colon Cancers.

ColorectalOther published and consortium studiesSource code coadPubMed 1
Colon Cancer (CPTAC-2 Prospective, Cell 2019)
Proteogenomic analysis of prospectively collected 110 human colon adenocarcinoma tumor normal pairs. Data generated by CPTAC.

ColorectalOther published and consortium studiesSource code coadPubMed 1
Colon Cancer (Sidra-LUMC AC-ICAM, Nat Med 2023)
Whole exome and transcriptome sequencing of 348 Colon Cancers and their matched normals from Sidra-LUMC AC-ICAM.

ColorectalOther published and consortium studiesSource code coadPubMed 1
Colorectal Adenocarcinoma (DFCI, Cell Reports 2016)
Whole-exome sequencing of 619 colorectal cancers with clinicopathologic annotations.

ColorectalOther published and consortium studiesSource code coadreadPubMed 1
Colorectal Adenocarcinoma (DFCI/Orion, BioRxiv 2024)
Combined spatial and targeted genomic analysis of 74 colon and rectal cancers.

ColorectalOther published and consortium studiesSource code bowelPubMed 1
Colorectal Adenocarcinoma (Genentech, Nature 2012)
Whole-genome sequencing of 74 paired colon tumor-normal samples.

ColorectalOther published and consortium studiesSource code coadreadPubMed 1
Colorectal Adenocarcinoma (MSK, Nat Commun 2022)
Targeted sequencing of 180 colitis-associated cancers and their matched normals.

ColorectalMSK studiesSource code bowelPubMed 1
Colorectal Adenocarcinoma (TCGA, Firehose Legacy)
TCGA Colorectal Adenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/COADREAD/20160128/). Previously known as TCGA Provisional.

ColorectalTCGA Firehose LegacySource code coadread
Colorectal Adenocarcinoma (TCGA, Nature 2012)
Whole exome sequencing in 224 of the 276 colorectal carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Colorectal Cancer project.

ColorectalTCGA (other releases)Source code coadreadPubMed 1
Colorectal Adenocarcinoma (TCGA, PanCancer Atlas)
Colorectal Adenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratla…

ColorectalTCGA PanCancer AtlasSource code coadreadPubMed 12
Colorectal Adenocarcinoma Triplets (MSK, Genome Biol 2014)
Targeted sequencing of primary, metastatic, and normal tissues from 69 colorectal adenocarcinoma patients.

ColorectalMSK studiesSource code coadreadPubMed 1
Colorectal Cancer (CAS Shanghai, Cancer Cell 2020)
Whole-exome sequencing of 146 colorectal tumor/normal pairs from a chinese cohort, covering 70 metastatic and 76 non-metastatic colorectal cancer patients.

ColorectalOther published and consortium studiesSource code coadreadPubMed 1
Colorectal Cancer (HTAN MSK, Nature 2025)
Targeted genomic and single-cell RNA sequencing of normal colon, primary colorectal cancer, and matched metastatic samples from 29 patients.

ColorectalMSK studiesSource code coadreadPubMed 1
Colorectal Cancer (MSK, Cancer Discovery 2022)
Targeted sequencing of patient-derived xenografts, cell lines, tumors and their matched normals from 22 colorectal samples via MSK-IMPACT.

ColorectalMSK studiesSource code coadreadPubMed 1
Colorectal Cancer (MSK, Gastroenterology 2020)
Targeted sequencing of 471 unresectable colorectal tumor/normal pairs via MSK-IMPACT.

ColorectalMSK studiesSource code coadreadPubMed 1
Colorectal Cancer (MSK, JCO Precis Oncol 2022)
Molecular characterization of 47 BRAF inhibitor-naive colorectal cancer patients with dual RAS hotspot/BRAF V600E mutations.

ColorectalMSK studiesSource code coadreadPubMed 1
Colorectal Cancer (MSK, JNCI 2021)
Targeted sequencing of 1,516 samples from 818 patients with early onset and 698 patients with average onset colorectal cancer and their matched normals.

ColorectalMSK studiesSource code bowelPubMed 1
Colorectal Cancer- ChangKang Project (SYSUCC, Nat Commun 2022)
Whole exome sequencing on 1,015 Chinese colorectal cancer patients, analyzing both tumor and matched normal tissues using the HapOnco WESplus capture-based next-generation sequencing (NGS) platform as part of the Chan…

ColorectalOther published and consortium studiesSource code coadreadPubMed 1
Combined Hepatocellular and Intrahepatic Cholangiocarcinoma (Peking University, Cancer Cell 2019)
Whole-exome sequencing of 121 combined hepatocellular and intrahepatic cholangiocarcinoma (cHCC-ICC) patients with matched normal pairs (whole-genome sequenced samples are not included here).

Liver, bile duct and gallbladderOther published and consortium studiesSource code hccihchPubMed 1
Cutaneous Neurofibroma Data Resource (CTF, Scientific Data 2021)
The data are contributed by researchers funded by the Children's Tumor Foundation. The reprocessing of the raw data is managed by the NF Open Science Initiative NF Open Science Initiative .

Brain and nervous systemOther published and consortium studiesSource code nfibPubMed 2
Cutaneous Squamous Cell Carcinoma (DFCI, Clin Cancer Res 2015)
Targeted sequencing of 29 metastatic cutaneous squamous cell carcinoma samples.

Skin and eyeOther published and consortium studiesSource code csccPubMed 1
Cutaneous Squamous Cell Carcinoma (MD Anderson, Clin Cancer Res 2014)
Whole-exome sequencing of tumor/normal pairs from 39 aggressive cutaneous squamous cell carcinoma cases.

Skin and eyeOther published and consortium studiesSource code csccPubMed 1
Cutaneous Squamous Cell Carcinoma (UCSF, NPJ Genom Med 2021)
Catalogue of driver genes in cutaneous squamous cell carcinoma. Meta-analysis of 105 normal/tumor pairs.

Skin and eyeOther published and consortium studiesSource code csccPubMed 1
Cutaneous Squamous Cell Carcinoma (UOW, Front Oncol 2022)
Whole genome sequencing of 25 metastatic cutaneous squamous cell carcinoma and their matched normals. Generated by the Ranson Lab 2022.

Skin and eyeOther published and consortium studiesSource code csccPubMed 1
Cutaneous T Cell Lymphoma (Columbia U, Nat Genet 2015)
Whole-Exome Sequencing (WXS) of tumor-normal sample pairs from 25 patients with Sezary Syndrome and 17 patients with other Cutaneous T Cell Lymphoma (CTCLs).

Blood, lymph and bone marrowOther published and consortium studiesSource code nhlPubMed 1
Cystic Tumor of the Pancreas (Johns Hopkins, PNAS 2011)
Whole-exome sequencing of major neoplastic cyst types of the pancreas: 8 serous cystadenomas (SCAs), 8 intraductal papillary mucinous neoplasms (IPMNs), 8 mucinous cystic neoplasms (MCNs), and 8 solid pseudopapillary…

PancreasOther published and consortium studiesSource code pactPubMed 1
Desmoplastic Melanoma (Broad Institute, Nat Genet 2015)
Exome/Whole Genome sequencing of 20 desmoplastic melanoma tumor/normal pairs.

Skin and eyeOther published and consortium studiesSource code desmPubMed 1
Diffuse Glioma (GLASS Consortium)
Whole genome or whole exome sequencing analysis of temporally separated diffuse glioma tumor/normal pairs from 329 adult patients. The data provided is based on the May 31, 2022 version and can be accessed at Synapse…

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 2
Diffuse Glioma (GLASS Consortium, Nature 2019)
Whole genome or whole exome sequencing analysis of temporally separated diffuse glioma tumor/normal pairs from 222 adult patients.

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 1
Diffuse Large B cell Lymphoma (DFCI, Nat Med 2018)
Whole-exome sequencing of tumor/matching normal sample pairs from 135 DLBCL patients.

Blood, lymph and bone marrowOther published and consortium studiesSource code dlbclnosPubMed 1
Diffuse Large B-cell Lymphoma (BCGSC, Blood 2013)
Whole genome sequencing of 40 DLBCL tumor/normal pairs and 13 cell lines.

Blood, lymph and bone marrowOther published and consortium studiesSource code nhlPubMed 1
Diffuse Large B-Cell Lymphoma (Broad, PNAS 2012)
Whole exome sequencing of 58 primary DLBCL samples and their matched normals.

Blood, lymph and bone marrowOther published and consortium studiesSource code nhlPubMed 1
Diffuse Large B-Cell Lymphoma (Duke, Cell 2017)
Whole-exome sequencing of 1,001 Diffuse Large B Cell Lymphoma (DLBCL) tumors (N = 1001) and paired-normal tissue (N = 400).

Blood, lymph and bone marrowOther published and consortium studiesSource code dlbclnosPubMed 1
Diffuse Large B-Cell Lymphoma (MSK, Haematologica 2024)
Targeted sequencing of 396 diffuse large B-cell lymphoma samples and their matched normals via MSK-IMPACT.

Blood, lymph and bone marrowMSK studiesSource code mbnPubMed 1
Diffuse Large B-Cell Lymphoma (TCGA, PanCancer Atlas)
Diffuse Large B-Cell Lymphoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancancer…

Blood, lymph and bone marrowTCGA PanCancer AtlasSource code dlbclnosPubMed 11
Disparities in metastatic colorectal cancer between Africans and Americans (MSK, 2020)
Targeted sequencing of 64 colorectal tumor/normal pairs via MSK-IMPACT to determine the epigenetic differences seen in Nigerian patients.

ColorectalMSK studiesSource code coadreadPubMed 1
Endometrial and Ovarian Cancer (MSK, Nature Medicine 2024)
Targeted sequencing of 33 endometrial and ovarian tumors and their matched normals via MSK-IMPACT.

GynecologicMSK studiesSource code mixedPubMed 1
Endometrial Cancer (MSK, 2018)
MSK-IMPACT sequencing of 197 advanced-staged endometrial cancer tumor samples with matched normals, from 189 patients treated at MSK.

GynecologicMSK studiesSource code ucecPubMed 1
Endometrial Cancer (MSK, Cancer Discovery 2023)
Targeted sequencing of 1882 endometrial cancers and their matched normals via MSK-IMPACT.

GynecologicMSK studiesSource code ucecPubMed 1
Endometrial Carcinoma (CPTAC, Cell 2020)
Proteogenomic Characterization of Endometrial Carcinoma. Generated by CPTAC.

GynecologicOther published and consortium studiesSource code ucecPubMed 1
Endometrial Carcinoma (MSK, Molecular Oncology 2024)
Targeted sequencing of 69 ERBB2-mutant endometrial carcinoma tumors and their matched normal pairs via MSK-IMPACT.

GynecologicMSK studiesSource code ucecPubMed 1
Endometrial Carcinoma cfDNA (MSK, Clin Cancer Res 2022)
High-sensitivity mutation analysis of cell-free DNA for disease monitoring in endometrial cancer.

GynecologicMSK studiesSource code ucecPubMed 1
Endometrial Carcinoma MSI (MSK, Clin Cancer Res 2022)
Clinical and genetic features of microsatellite instability-high endometrial cancers harboring germline or somatic mutations in MMR genes or MLH1 promoter hypermethylation.

GynecologicMSK studiesSource code ucecPubMed 1
Esophageal Adenocarcinoma (DFCI, Nat Genet 2013)
Whole-exome sequencing of 149 tumor/normal pairs and whole-genome sequencing of 16 pairs from 149 esophageal adenocarcinoma patients.

Esophagus and stomachOther published and consortium studiesSource code escaPubMed 1
Esophageal Adenocarcinoma (TCGA, PanCancer Atlas)
Esophageal Adenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratla…

Esophagus and stomachTCGA PanCancer AtlasSource code escaPubMed 11
Esophageal Cancer-TRAP Project (MSK, Lancet Oncol 2020)
Targeted and WES recapture sequencing of tumor/normal samples from 37 Esophageal Cancer patients.

Esophagus and stomachMSK studiesSource code egcPubMed 1
Esophageal Carcinoma (TCGA, Firehose Legacy)
TCGA Esophageal Carcinoma . Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/ESCA/20160128/). Previously known as TCGA Provisional.

Esophagus and stomachTCGA Firehose LegacySource code esca
Esophageal Carcinoma (TCGA, Nature 2017)
Whole exome sequencing of 559 esophageal and gastric carcinoma tumors with matched normals.

Esophagus and stomachTCGA (other releases)Source code egcPubMed 1
Esophageal Squamous Cell Carcinoma (ICGC, Nature 2014)
Whole-genome or whole-exome sequencing of 88 esophageal squamous cell carcinoma tumor/normal pairs.

Esophagus and stomachOther published and consortium studiesSource code esccPubMed 1
Esophageal Squamous Cell Carcinoma (UCLA, Nat Genet 2014)
Whole exome sequencing (WXS) or targeted deep sequencing (TDS) of 139 paired esophageal squamous cell carcinoma patients.

Esophagus and stomachOther published and consortium studiesSource code esccPubMed 1
Esophageal/Stomach Cancer (MSK, 2020)
Targeted sequencing of 487 Esophageal/stomach cancer tumor-normal pairs via MSK-IMPACT.

Esophagus and stomachMSK studiesSource code stomachPubMed 1
Esophagogastric Cancer (MSK, Clin Cancer Res 2022)
Targeted sequencing of 237 esophagogastric tumor/normal pairs via MSK-IMPACT platform.

Esophagus and stomachMSK studiesSource code egcPubMed 1
Esophagogastric Cancer (MSK, Clin Cancer Res 2023)
Whole exome sequencing of 64 esophagogastric cancers and their matched normal samples.

Esophagus and stomachMSK studiesSource code egcPubMed 1
Esophagogastric Cancer (MSK, J Natl Cancer Inst 2023)
Targeted sequencing of 902 patients with early-onset and average-onset esophagogastric cancers and their matched normals via MSK-IMPACT.

Esophagus and stomachMSK studiesSource code stomachPubMed 1
Ewing Sarcoma (Institut Curie, Cancer Discov 2014)
Whole-genome sequencing of 112 Ewing sarcoma samples and matched germ line DNA.

Sarcoma and soft tissueOther published and consortium studiesSource code esPubMed 1
Ewing Sarcoma (MSK, Cancer Research 2024)
Targeted Sequencing of 277 Ewing sarcoma and Desmoplastic small round cell patient tumors with their matched normal pairs via MSK-IMPACT platform to detect EWSR1 chromoplexy-associated structural rearrangements.

Sarcoma and soft tissueMSK studiesSource code esPubMed 1
Gallbladder Cancer (MSK, 2022)
Targeted sequencing of 244 Gallbladder cases via MSK-IMPACT where investigators calculated the Overall survival time for 100 metastatic gallbladder patients.

Liver, bile duct and gallbladderMSK studiesSource code gbcPubMed 1
Gallbladder Cancer (MSK, Cancer 2018)
Targeted Sequencing of 103 samples with matched normals from 101 Gallbladder cancer patients.

Liver, bile duct and gallbladderMSK studiesSource code gbcPubMed 1
Gallbladder Carcinoma (Shanghai, Nat Genet 2014)
Whole exome sequencing of 32 gallbladder carcinoma tumor/normal pairs.

Liver, bile duct and gallbladderOther published and consortium studiesSource code gbcPubMed 1
Gastric Adenocarcinoma (TMUCIH, PNAS 2015)
Whole-exome sequencing of 78 Gastric Adenocarcinomas and their matched normal samples.

Esophagus and stomachOther published and consortium studiesSource code egcPubMed 1
Gastric Cancer (OncoSG, 2018)
Whole-genome sequencing of 147 gastric cancer tumors with matched normals. Courtesy of OncoSG (https://src.gisapps.org/OncoSG/).

Esophagus and stomachOther published and consortium studiesSource code stadPubMed 1
Gastrointestinal Stromal Tumor (MSK, NPJ Precis Oncol 2023)
Paired analysis of 499 Gastrointestinal stromal tumor/normal pairs via MSK-IMPACT platform.

Sarcoma and soft tissueMSK studiesSource code gistPubMed 1
Gastrointestinal Stromal Tumors (MSK, Clin Cancer Res 2023)
Targeted sequencing of 469 gastrointestinal stromal tumors and their matched normals via MSK-IMPACT.

Sarcoma and soft tissueMSK studiesSource code gistPubMed 1
Germ Cell Tumors (MSK, J Clin Oncol 2016)
Whole-exome and Targeted sequencing of 19 samples and Targeted sequencing of 161 samples from 180 Germ Cell Tumor patients.

Germ cell and testisMSK studiesSource code gctPubMed 1
Germ Cell Tumors and Shared Leukemias (MSK, J Clin Invest 2020)
Targeted and WES sequencing of germ cell tumor and shared leukemia samples.

Blood, lymph and bone marrowMSK studiesSource code testisPubMed 1
Glioblastoma (Columbia, Nat Med. 2019)
Whole-exome sequencing of 32 out of 42 glioblastomas patients with matched normals.

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 1
Glioblastoma (CPTAC, Cell 2021)
Proteogenomic and metabolomic characterization of human glioblastoma. Whole genome or whole exome sequencing of 99 samples. Generated by CPTAC.

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 1
Glioblastoma (Randomized Clinical Trial, Nat Med. 2019) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 30 recurrent glioblastomas and their matched normals from a randomized, multi-institution clinical trial to evaluate immune responses and survival following…

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 1
Glioblastoma (TCGA, Cell 2013)
Whole-exome and/or whole-genome sequencing of 291 of the 577 glioblastoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Glioblastoma Project.

Brain and nervous systemTCGA (other releases)Source code difgPubMed 1
Glioblastoma (TCGA, Nature 2008)
Targeted sequencing in 91 of the 206 primary glioblastoma tumors (143 with matched normals) from the Cancer Genome Atlas (TCGA) Glioblastoma Project.

Brain and nervous systemTCGA (other releases)Source code difgPubMed 1
Glioblastoma Multiforme (TCGA, Firehose Legacy)
TCGA Glioblastoma Multiforme. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/GBM/20160128/). Previously known as TCGA Provisional.

Brain and nervous systemTCGA Firehose LegacySource code difg
Glioblastoma Multiforme (TCGA, PanCancer Atlas)
Glioblastoma Multiforme TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/…

Brain and nervous systemTCGA PanCancer AtlasSource code difgPubMed 12
Glioma (MSK, Clin Cancer Res 2019)
Targeted sequencing on MSK-IMPACT and FMI Panels of 1004 samples (837 with matched normals) from 923 glioma patients.

Brain and nervous systemMSK studiesSource code difgPubMed 1
Glioma (MSK, Nature 2019)
Targeted Sequencing of CSF samples (91 samples with 86 matched normals) from 42 glioma patients.

Brain and nervous systemMSK studiesSource code difgPubMed 1
Head and Neck Squamous Cell Carcinoma (Broad, Science 2011)
Whole-exome sequencing of 74 head and neck squamous cell carcinoma tumor/normal pairs.

Head and neckOther published and consortium studiesSource code hnscPubMed 1
Head and Neck Squamous Cell Carcinoma (Johns Hopkins, Science 2011)
Whole exome sequencing of 32 head and neck squamous cell carcinoma tumor/normal sample pairs.

Head and neckOther published and consortium studiesSource code hnscPubMed 1
Head and Neck Squamous Cell Carcinoma (TCGA, Firehose Legacy)
TCGA Head and Neck Squamous Cell Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/HNSC/20160128/). Previously known as TCGA Provisional.

Head and neckTCGA Firehose LegacySource code hnsc
Head and Neck Squamous Cell Carcinoma (TCGA, Nature 2015)
Whole-exome sequencing and/or whole-genome sequencing of 279 head and neck squamous cell carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) head and neck squamous cell carcinoma Project.

Head and neckTCGA (other releases)Source code hnscPubMed 1
Head and Neck Squamous Cell Carcinoma (TCGA, PanCancer Atlas)
Head and Neck Squamous Cell Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/p…

Head and neckTCGA PanCancer AtlasSource code hnscPubMed 12
Hepatocellular Adenoma (INSERM, Cancer Cell 2014)
Whole-exome sequencing of 46 liver tumor/normal pairs.

Liver, bile duct and gallbladderOther published and consortium studiesSource code liadPubMed 1
Hepatocellular Carcinoma (CLCA, Nature 2024)
The Chinese Liver Cancer Atlas (CLCA) project. Deep whole-genome sequencing of 494 hepatocellular carcinomas and their matched normals. Data from CLC Atlas (http://lifeome.net:8080/clca/#/).

Liver, bile duct and gallbladderOther published and consortium studiesSource code hccPubMed 1
Hepatocellular Carcinoma (MERiC/Basel, Nat Commun. 2022)
Whole-exome sequencing of 122 Hepatocellular carcinomas and their matched normals. Dataset was generated in 2021 by MERiC and Charlotte Ng (hg19 original; Basel/Bern research pipeline).

Liver, bile duct and gallbladderOther published and consortium studiesSource code hccPubMed 1
Hepatocellular Carcinoma (MSK, Clin Cancer Res 2018)
MSK-IMPACT sequencing of 127 Hepatocellular Carcinoma tumor samples with matched normals.

Liver, bile duct and gallbladderMSK studiesSource code hccPubMed 1
Hepatocellular Carcinoma (MSK, Clin Cancer Res 2024)
Targeted sequencing of 1,370 hepatobiliary cancer samples (with 1366 matched normals) via MSK-IMPACT. This data is available under the Creative Commons BY-NC-ND 4.0 license (https://creativecommons.org/licenses/by-nc-…

Liver, bile duct and gallbladderMSK studiesSource code hccPubMed 1
Hepatocellular Carcinoma (MSK, JCO Precis Oncol 2023)
Targeted sequencing of 51 hepatocellular carcinoma patients and their matched normal samples via MSK-IMPACT.

Liver, bile duct and gallbladderMSK studiesSource code hccPubMed 1
Hepatocellular Carcinomas (INSERM, Nat Genet 2015)
Whole-exome sequencing of 243 liver tumors and matched normals.

Liver, bile duct and gallbladderOther published and consortium studiesSource code hccPubMed 1
Hereditary SDHB-Mutant Pheochromocytomas and Paragangliomas (A5 Consortium, Nature Comm 2025)
Whole genome sequencing of 94 Hereditary SDHB-mutant pheochromocytomas (PC) and paragangliomas (PG) tumors and their matched normals.

Brain and nervous systemOther published and consortium studiesSource code hnscPubMed 1
High-Grade Serous Ovarian Cancer (MSK, NPJ Genome Med 2021)
Targeted Sequencing of 45 Serous Ovarian Cancer tumor/normal pairs from 45 patients.

GynecologicMSK studiesSource code hgsocPubMed 1
Histiocytosis Cobimetinib (MSK, Nature 2019)
Targeted and whole exome sequencing of 52 histiocytosis tumor/normal pairs.

Blood, lymph and bone marrowMSK studiesSource code hdcnPubMed 1
Hypodiploid Acute Lymphoid Leukemia (St Jude, Nat Genet 2013)
Whole genome or exome sequencing of 44 (20 whole genome, 20 exome) ALL tumor/normal pairs.

Blood, lymph and bone marrowOther published and consortium studiesSource code myeloidPubMed 1
IDH-mutated Diffuse Glioma (MSK, Clin Cancer Res 2024)
Targeted sequencing of 73 IDH-mutated low-grade gliomas and their matched normal pairs via MSK-IMPACT. The data is available on Synapse (https://www.synapse.org/#!Synapse:syn52658621/wiki/624065).

Brain and nervous systemMSK studiesSource code difgPubMed 1
Insulinoma (Shanghai, Nat Commun 2013)
Whole exome sequencing of 10 benign insulinoma tumor/normal pairs.

Multiple or not classified from the titleOther published and consortium studiesSource code panetPubMed 1
Intrahepatic Cholangiocarcinoma (JHU, Nat Genet 2013)
Exome sequencing of tumor/normal pairs from 32 intrahepatic cholangiocarcinoma cases and 8 gall bladder carcinoma cases.

Liver, bile duct and gallbladderOther published and consortium studiesSource code cholPubMed 1
Intrahepatic Cholangiocarcinoma (Mount Sinai 2015)
Whole-exome sequencing of 8 tumor-normal paired iCCA samples by Liver Cancer Program at the Icahn School of Medicine at Mount Sinai, in collaboration with Barcelona-Clínic Liver Cancer Group.

Liver, bile duct and gallbladderOther published and consortium studiesSource code ihchPubMed 1
Intrahepatic Cholangiocarcinoma (MSK, Clin Cancer Res 2021)
Targeted sequencing of IMPACT and CMO samples

Liver, bile duct and gallbladderMSK studiesSource code ihchPubMed 1
Intrahepatic Cholangiocarcinoma (MSK, Hepatology 2021)
Targeted sequencing of 412 intrahepatic cholangiocarcinoma tumor/normal sample pairs.

Liver, bile duct and gallbladderMSK studiesSource code ihchPubMed 1
Intrahepatic Cholangiocarcinoma (Shanghai, Nat Commun 2014)
Whole exome sequencing of 103 tumor/normal sample pairs in 103 intrahepatic cholangiocarcinoma patients.

Liver, bile duct and gallbladderOther published and consortium studiesSource code ihchPubMed 1
Juvenile Papillomatosis and Breast Cancer (MSK,J Pathol. 2015)
Whole-exome sequencing analysis of juvenile papillomatosis and coexisting breast carcinoma.

BreastMSK studiesSource code brcaPubMed 1
Kidney Chromophobe (TCGA, Cancer Cell 2014)
Whole-exome sequencing of 66 chromophobe renal cell carcinoma (ChRCCs) tumor/normal pairs.

Kidney and bladderTCGA (other releases)Source code chrccPubMed 1
Kidney Chromophobe (TCGA, Firehose Legacy)
TCGA Kidney Chromophobe. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KICH/20160128/). Previously known as TCGA Provisional.

Kidney and bladderTCGA Firehose LegacySource code chrcc
Kidney Chromophobe (TCGA, PanCancer Atlas)
Kidney Chromophobe TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/panca…

Kidney and bladderTCGA PanCancer AtlasSource code chrccPubMed 11
Kidney Renal Clear Cell Carcinoma (BGI, Nat Genet 2012)
Whole-exome sequencing of 10 ccRCC tumor/normal pairs and targeted sequencing of 88 clear cell carcinoma tumor/normal pairs. Generated by BGI-Shenzhen.

Kidney and bladderOther published and consortium studiesSource code ccrccPubMed 1
Kidney Renal Clear Cell Carcinoma (IRC, Nat Genet 2014)
Multi region exome sequencing of 10 clear cell renal cell carcinomas (ccRCCs)

Kidney and bladderOther published and consortium studiesSource code ccrccPubMed 1
Kidney Renal Clear Cell Carcinoma (TCGA, Firehose Legacy)
TCGA Kidney Renal Clear Cell Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KIRC/20160128/). Previously known as TCGA Provisional.

Kidney and bladderTCGA Firehose LegacySource code ccrcc
Kidney Renal Clear Cell Carcinoma (TCGA, Nature 2013)
Whole-exome sequencing in 417 of 446 clear cell renal cell carcinoma tumor/normal pairs.

Kidney and bladderTCGA (other releases)Source code ccrccPubMed 1
Kidney Renal Clear Cell Carcinoma (TCGA, PanCancer Atlas)
Kidney Renal Clear Cell Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/panca…

Kidney and bladderTCGA PanCancer AtlasSource code ccrccPubMed 12
Kidney Renal Papillary Cell Carcinoma (TCGA, Firehose Legacy)
TCGA Kidney Renal Papillary Cell Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KIRP/20160128/). Previously known as TCGA Provisional.

Kidney and bladderTCGA Firehose LegacySource code prcc
Kidney Renal Papillary Cell Carcinoma (TCGA, PanCancer Atlas)
Kidney Renal Papillary Cell Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/p…

Kidney and bladderTCGA PanCancer AtlasSource code prccPubMed 12
Liver Hepatocellular Adenoma and Carcinomas (MSK, PLOS One 2018)
Targeted sequencing of tumor/normal pairs of 9 LIAD and 10 HCC patients via MSK-IMPACT platform.

Liver, bile duct and gallbladderMSK studiesSource code hccPubMed 1
Liver Hepatocellular Carcinoma (AMC, Hepatology 2014)
Whole exome sequencing of 231 hepatocellular carcinomas and matched normal tissue pairs.

Liver, bile duct and gallbladderOther published and consortium studiesSource code hccPubMed 1
Liver Hepatocellular Carcinoma (RIKEN, Nat Genet 2012)
Whole-genome sequencing of 27 hepatocellular carcinoma tumor/norma pairs from RIKEN.

Liver, bile duct and gallbladderOther published and consortium studiesSource code hccPubMed 1
Liver Hepatocellular Carcinoma (TCGA, Firehose Legacy)
TCGA Liver Hepatocellular Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LIHC/20160128/). Previously known as TCGA Provisional.

Liver, bile duct and gallbladderTCGA Firehose LegacySource code hcc
Liver Hepatocellular Carcinoma (TCGA, PanCancer Atlas)
Liver Hepatocellular Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancance…

Liver, bile duct and gallbladderTCGA PanCancer AtlasSource code hccPubMed 12
Low-Grade Gliomas (UCSF, Science 2014)
Whole exome sequencing of 23 grade II glioma tumor/normal pairs.

Brain and nervous systemOther published and consortium studiesSource code difgPubMed 1
Low-Grade Serous Ovarian Cancer (MSK, Clin Cancer Res 2022)
Characterization of the somatic mutational landscape of MAPK pathway in 119 low-grade serous ovarian carcinomas and their matched normals.

GynecologicMSK studiesSource code lgsocPubMed 1
Lung Adenocarcinoma (Broad, Cell 2012)
Whole-exome and/or whole-genome sequencing of 183 lung adenocarcinomas and matched normal tissue pairs.

Lung and pleuraOther published and consortium studiesSource code luadPubMed 1
Lung Adenocarcinoma (CAS, Cell 2020)
Whole-exome sequencing of 103 lung adenocarcinoma cases and their matched normals in Chinese patients.

Lung and pleuraOther published and consortium studiesSource code luadPubMed 1
Lung Adenocarcinoma (CPTAC, Cell 2020)
Whole genome (WGS) or whole exome sequencing (WES) of 110 tumors and 101 matched normal adjacent tissues in lung adenocarcinoma. Proteogenomic characterization generated by CPTAC.

Lung and pleuraOther published and consortium studiesSource code luadPubMed 1
Lung Adenocarcinoma (MSK Mind,Nature Cancer 2022)
Multimodality tools to predict response to PD-(L)1 blockade in patients with lung adenocarcinoma.

Lung and pleuraMSK studiesSource code lungPubMed 1
Lung Adenocarcinoma (MSK, 2021)
Targeted sequencing of 186 matched normal samples from 186 lung adenocarcinoma patient via MSK-IMPACT.

Lung and pleuraMSK studiesSource code luad
Lung Adenocarcinoma (MSK, J Thorac Oncol 2020)
Targeted sequencing of 604 lung adenocarcinoma tumor/normal pairs via MSK-IMPACT.

Lung and pleuraMSK studiesSource code luadPubMed 1
Lung Adenocarcinoma (MSK, NPJ Precision Oncology 2021)
Targeted sequencing of 426 matched normal samples from 426 lung adenocarcinoma patients.

Lung and pleuraMSK studiesSource code luadPubMed 1
Lung Adenocarcinoma (MSK, Science 2015)
Whole-exome sequencing of 34 non small cell lung cancer tumor/normal pairs.

Lung and pleuraMSK studiesSource code luadPubMed 1
Lung Adenocarcinoma (OncoSG, Nat Genet 2020)
Whole-exome and transcriptome sequencing of 305 east asian lung adenocarcinomas with matched normals. Courtesy of OncoSG (https://src.gisapps.org/OncoSG/). Lung Cancer Consortium Singapore (LCCS).

Lung and pleuraOther published and consortium studiesSource code luadPubMed 1
Lung Adenocarcinoma (TCGA, Firehose Legacy)
TCGA Lung Adenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LUAD/20160128/). Previously known as TCGA Provisional.

Lung and pleuraTCGA Firehose LegacySource code luad
Lung Adenocarcinoma (TCGA, Nature 2014)
Whole exome sequencing of 230 lung adenocarcinoma tumor/normal pairs. Raw data via the TCGA Data Portal (https://tcga-data.nci.nih.gov/docs/publications/luad_2014/).

Lung and pleuraTCGA (other releases)Source code luadPubMed 1
Lung Adenocarcinoma (TCGA, PanCancer Atlas)
Lung Adenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/panc…

Lung and pleuraTCGA PanCancer AtlasSource code luadPubMed 12
Lung Adenocarcinoma (TSP, Nature 2008)
Targeted sequencing of 163 lung adenocarcinoma tumor/normal pairs. Generated by WashU/Broad.

Lung and pleuraOther published and consortium studiesSource code luadPubMed 1
Lung Adenocarcinoma Met Organotropism (MSK, Cancer Cell 2023)
Targeted and whole-exome sequencing of 2653 lung adenocarcinoma tumor/normal sample pairs.

Lung and pleuraMSK studiesSource code luadPubMed 1
Lung Cancer (SMC, Cancer Research 2016)
Whole exome and whole transcriptome sequencing of primary and multiple metastatic lymph node samples from 6 lung cancer patients with their matched normals.

Lung and pleuraOther published and consortium studiesSource code lungPubMed 1
Lung Cancer in Never Smokers (NCI, Nature Genetics 2021)
Whole-genome sequencing of 232 treatment-naive never smoker patients with Lung cancer and their matched normals.

Lung and pleuraOther published and consortium studiesSource code luadPubMed 1
Lung Squamous Cell Carcinoma (CPTAC, Cell 2021)
Whole genome / whole exome sequencing and proteogenomic portrait of 108 prospectively collected, treatment-naive, primary LSCC tumors and 99 paired normal adjacent tissues. Generated by CPTAC.

Lung and pleuraOther published and consortium studiesSource code luscPubMed 1
Lung Squamous Cell Carcinoma (TCGA, Firehose Legacy)
TCGA Lung Squamous Cell Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LUSC/20160128/). Previously known as TCGA Provisional.

Lung and pleuraTCGA Firehose LegacySource code lusc
Lung Squamous Cell Carcinoma (TCGA, Nature 2012)
Whole exome sequencing of 178 lung squamous cell carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) (http://cancergenome.nih.gov/) Lung Squamous Cell Carcinoma project.

Lung and pleuraTCGA (other releases)Source code luscPubMed 1
Lung Squamous Cell Carcinoma (TCGA, PanCancer Atlas)
Lung Squamous Cell Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancancera…

Lung and pleuraTCGA PanCancer AtlasSource code luscPubMed 12
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma (TCGA, Firehose Legacy)
TCGA Lymphoid Neoplasm Diffuse Large B-cell Lymphoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/DLBC/20160128/). Previously known as TCGA Provisional.

Blood, lymph and bone marrowTCGA Firehose LegacySource code dlbclnos
Lymphoma Cell Lines (MSK, Blood 2020)
Targeted sequencing of 34 lymphoma cell lines using HemePACT_v3

Blood, lymph and bone marrowMSK studiesSource code lymphPubMed 1
Malignant Peripheral Nerve Sheath Tumor (MSK, Nat Genet 2014)
Whole exome sequencing of 15 malignant peripheral nerve sheath tumor/normal pairs.

Brain and nervous systemMSK studiesSource code mpnstPubMed 1
Mantle Cell Lymphoma (IDIBIPS, PNAS 2013)
Whole exome sequencing of 29 primary mantle cell lymphomas and their matched normals.

Blood, lymph and bone marrowOther published and consortium studiesSource code mclPubMed 1
MAPK on resistance to anti-HER2 therapy for breast cancer (MSK, Nat Commun. 2022)
MSK-IMPACT targeted sequencing of 145 breast tumors with matched normal samples.

BreastMSK studiesSource code brcaPubMed 1
Mature B-cell malignancies (MD Anderson Cancer Center)
We performed targeted deep sequencing of 380 recurrently mutated genes across a cohort of 755 mature B-cell malignancies to define conserved and disease-specific patterns of genomic alterations.PubMed (https://www.bio…

Blood, lymph and bone marrowOther published and consortium studiesSource code mbn
Mature B-Cell Neoplasms (Simon Fraser University, Blood 2023)
Comprehensive whole genome sequencing of 297 Burrkitt Lymphoma (BL) and diffuse large B-cell lymphoma (DLBCL) samples and their matched normals.

Blood, lymph and bone marrowOther published and consortium studiesSource code mbnPubMed 1
Mature T and NK Neoplasms (MSK, Blood Adv 2023)
Targeted sequencing of 132 Mature T and NK Neoplasms and their matched normals via MSK-IMPACT.

Blood, lymph and bone marrowMSK studiesSource code mtnnPubMed 1
Medulloblastoma (Broad, Nature 2012)
Whole exome sequencing of 92 primary medulloblastoma tumor/normal pairs.

Brain and nervous systemOther published and consortium studiesSource code mblPubMed 1
Medulloblastoma (DKFZ, Nature 2017)
Whole genome or whole exome sequencing of 491 previously untreated Medulloblastoma tumor/normal pairs.

Brain and nervous systemOther published and consortium studiesSource code mblPubMed 1
Medulloblastoma (ICGC, Nature 2012)
Comprehensive profiling of 125 matched tumor and germline medulloblastoma samples

Brain and nervous systemOther published and consortium studiesSource code mblPubMed 1
Medulloblastoma (PCGP, Nature 2012)
Whole genome sequencing of 37 medulloblastoma tumors and their matched normals from the Pediatric Cancer Genome Project (PCGP), a joint project by St. Jude Children's Research Hospital and Washington University.

Brain and nervous systemOther published and consortium studiesSource code mblPubMed 1
Medulloblastoma (Sickkids, Nature 2016)
Whole-genome sequencing of 46 recurrent medulloblastoma samples.

Brain and nervous systemOther published and consortium studiesSource code mblPubMed 1
Melanoma (Broad/Dana Farber, Nature 2012)
Whole Genome Sequencing of 25 metastatic melanoma samples with matched normals

Skin and eyeOther published and consortium studiesSource code skcmPubMed 1
Melanoma (MSK, Cell 2017) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of tumors from 64 advanced melanoma patients, profiled before and after nivolumab treatment. The reprocessing of raw sequencing data is coordinated by CRI iAtla…

Skin and eyeMSK studiesSource code melPubMed 1
Melanoma (MSK, Clin Cancer Res 2021)
Targeted sequencing (MSK-IMPACT) of 696 melanoma tumor/normal pairs.

Skin and eyeMSK studiesSource code melPubMed 1
Melanoma (MSK, NEJM 2014)
Whole-exome sequencing of 64 pretreated (ipilimumab or tremelimumab) melanoma tumor-normal pairs.

Skin and eyeMSK studiesSource code skcmPubMed 1
Melanomas (TCGA, Cell 2015)
Whole-exome sequencing of 333 primary and/or metastatic melanomas.

Skin and eyeTCGA (other releases)Source code skcmPubMed 1
Merged Cohort of LGG and GBM (TCGA, Cell 2016)
Whole exome sequencing of 1,122 LGG and GBM tumor/normal pairs.

Multiple or not classified from the titleTCGA (other releases)Source code difgPubMed 1
Mesothelioma (TCGA, Firehose Legacy)
TCGA Mesothelioma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/MESO/20160128/). Previously known as TCGA Provisional.

Lung and pleuraTCGA Firehose LegacySource code plmeso
Mesothelioma (TCGA, PanCancer Atlas)
Mesothelioma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/in…

Lung and pleuraTCGA PanCancer AtlasSource code plmesoPubMed 11
Metaplastic Breast Cancer (MSK,NPJ Breast Cancer 2021)
Targeted or whole-exome sequencing of 19 Metaplastic Breast Cancer tumor/normal pairs.

BreastMSK studiesSource code mbcPubMed 1
Metastatic Biliary Tract Cancers (SUMMIT - Neratinib Basket Trial, 2022)
Targeted sequencing of 25 advanced biliary tract cancers and their matched normals.

Liver, bile duct and gallbladderOther published and consortium studiesSource code biliary_tract
Metastatic Bladder Urothelial Carcinoma (IMvigor210 Phase II Trial, ESMO Open. 2024) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 347 metastatic bladder urothelial carcinomas and their matched normals, generated from a phase II trial of atezolizumab monotherapy in cisplatin-ineligible a…

Kidney and bladderOther published and consortium studiesSource code blcaPubMed 2
Metastatic Breast Cancer (AURORA US Network, Nat Cancer 2023)
Whole exome and low-pass whole genome sequencing of 55 patients with metastatic breast cancer (53 primary cancers and 102 metastases) and their matched normals. Retrospective Tissue Collection; an initiative of the Br…

BreastOther published and consortium studiesSource code brcaPubMed 1
Metastatic Breast Cancer (DFCI, Cancer Discov 2020)
Whole exome sequencing of 59 CDK4/6i exposed metastatic breast cancer tumors and their matched normals.

BreastOther published and consortium studiesSource code brcaPubMed 1
Metastatic Breast Cancer (INSERM, PLoS Med 2016)
Whole exome sequencing of 216 tumor/normal (blood) pairs from metastatic breast cancer patients who underwent a biopsy in the context of the SAFIR01/SAFIR02 (Unicancer, France), SHIVA (Institut Curie, France) or MOSCA…

BreastOther published and consortium studiesSource code brcaPubMed 1
Metastatic Breast Cancer (MSK, Cancer Discovery 2022)
Targeted Sequencing of 1365 metastatic Breast Cancer tumor/normal pairs via MSK-IMPACT to understand the role of INK4 on CDK4/6 resistance.

BreastMSK studiesSource code breastPubMed 1
Metastatic castration-sensitive prostate cancer (MSK, Clin Cancer Res 2020)
MSK-IMPACT sequencing of 424 matched tumor-normal samples from patients with metastatic castration-sensitive prostate cancer. Germline alterations are not shown here.

ProstateMSK studiesSource code pradPubMed 1
Metastatic Colorectal Cancer (MSK, Cancer Cell 2018)
Targeted sequencing of 1134 metastatic colorectal tumor/normal pairs.

ColorectalMSK studiesSource code coadreadPubMed 1
Metastatic Esophagogastric Cancer (MSK, Cancer Discovery 2017)
Targeted sequencing of 341 samples from 305 metastatic esophagogastric cancer patients

Esophagus and stomachMSK studiesSource code egcPubMed 1
Metastatic Melanoma (DFCI, Nat Med. 2019) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 122 patients with metastatic melanoma treated with anti-PD1 ICB, along with their matched normal samples. The reprocessing of raw sequencing data is coordina…

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Metastatic Melanoma (DFCI, Nature Medicine 2019)
Whole-exome sequencing of 144 pre-treatment samples from 144 patients with metastatic melanoma treated with anti-PD1 ICB. Related Dataset: A harmonized version with extended neoantigen annotations (122 samples) is ava…

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Metastatic Melanoma (DFCI, Science 2015)
Whole-exome sequencing of 110 metastatic melanoma tumor-normal pairs.

Skin and eyeOther published and consortium studiesSource code skcmPubMed 1
Metastatic Melanoma (Immunotherapy Trial, Cancer Cell 2019) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 158 metastatic melanomas treated with anti-PD-1 monotherapy or combined anti-PD-1 and anti-CTLA-4 therapy and their matched normals. A subset of these patien…

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Metastatic Melanoma (MSK, JCO Precis Oncol 2017)
Targeted sequencing of pre-treatment 66 Melanoma tumor samples. PubMed (https://ascopubs.org/doi/full/10.1200/PO.16.00054)

Skin and eyeMSK studiesSource code skcmPubMed 1
Metastatic Melanoma (UCLA, Cell 2016)
Whole-exome sequencing of 38 pretreated (pembrolizumab, nivolumab) melanoma tumor-normal pairs. Related Dataset: A harmonized version with extended neoantigen annotations (27 samples) is available: iAtlas Harmonized V…

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Metastatic Melanoma (UCLA, Cell 2016) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 27 pretreatment melanoma tumors and their matched normals. The reprocessing of raw sequencing data is coordinated by CRI iAtlas (https://cri-iatlas.org/). Re…

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Metastatic Non-Small Cell Lung Cancer (MSK, Nature Medicine 2022)
Targeted sequencing of ctDNA samples drawn from patients with metastatic NSCLC using the Resolution ctDx Lung platform. For more information contact jeej@mskcc.org or lib1@mskcc.org

Lung and pleuraMSK studiesSource code nsclcPubMed 1
Metastatic Pancreatic Adenocarcinoma (PRINCE Trial, Nat Med. 2022) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 93 metastatic pancreatic adenocarcinomas and their matched normals from a randomized phase 2 trial evaluating the efficacy of nivolumab and/or sotigalimab wi…

PancreasOther published and consortium studiesSource code paadPubMed 1
Metastatic Pancreatic Neuroendocrine Tumor (MSK, JCO Precis Oncol 2018)
Targeted sequencing of 96 metastatic pancreatic neuroendocrine tumors from 80 patients and their matched normals using MSK-IMPACT. This data is available under the Creative Commons BY-NC-ND 4.0 license (https://creati…

PancreasMSK studiesSource code panetPubMed 1
Metastatic Prostate Adenocarcinoma (MCTP, Nature 2012)
Exome sequencing of 61 prostate cancer tumor/normal pairs (50 metastatic CRPCs and 11 high-grade localized prostate cancers). Generated by Arul Chinnaiyan's and Scott Tomlins' labs at the University of Michigan.

ProstateOther published and consortium studiesSource code pradPubMed 1
Metastatic Prostate Adenocarcinoma (SU2C/PCF Dream Team, PNAS 2019)
Whole exome sequencing of 444 castrate resistant prostate cancer tumor/normal pairs. SU2C-PCF Dream Team: Precision Therapy for Advanced Prostate Cancer.

ProstateOther published and consortium studiesSource code pradPubMed 1
Metastatic Prostate Cancer (SU2C/PCF Dream Team, Cell 2015)
Whole-exome sequencing of 150 metastatic prostate cancer tumor/normal pairs by the SU2C/PCF Dream Team.

ProstateOther published and consortium studiesSource code pradPubMed 1
Metastatic Renal Clear Cell Carcinoma (Phase 1 Biomarker Trial, Clin Cancer Res. 2016) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 16 metastatic renal cell carcinomas and their matched normals from an open-label, parallel, four-group, phase 1b study (https://clinicaltrials.gov/study/NCT0…

Kidney and bladderOther published and consortium studiesSource code rccPubMed 1
Metastatic Solid Cancers (UMich, Nature 2017)
Whole-exome and -transcriptome sequencing of 500 adult patients with metastatic solid tumor/primary normal pairs of diverse lineage and biopsy site.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Metastatic Triple Negative Breast Cancer (UNC Phase II Trial, J Immunother Cancer 2022) - iAtlas Harmonized
Whole-exome sequencing and neoantigen landscape analysis of 31 patients with pretreated metastatic triple-negative breast cancer (mTNBC) enrolled in a phase II trial (https://clinicaltrials.gov/study/NCT02768701) eval…

BreastOther published and consortium studiesSource code brcaPubMed 1
Mixed cfDNA (MSK, Nature Medicine 2019)
Targeted sequencing of 248 samples from 124 patients' cfDNA/WBC and tumor/normal pairs.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Mixed Tumors - MiMSI Cohort (MSK, Nat Commun 2024)
Targeted sequencing of 5,033 clinical cases and their matched normals via MSK-IMPACT, with pathologist-confirmed orthogonal MMR IHC data.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Mixed Tumors Selpercatinib RET Trial (MSK, Nat Commun. 2022)
Targeted sequencing of Selpercatinib treated RET-driven solid cancers.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK ctDNA Sequencing Cohort (MSK, Nature Medicine 2024)
Targeted sequencing of 5,567 cancer patient ctDNA samples via MSK-ACCESS. This data is available under the Creative Commons BY-NC-ND 4.0 license (https://creativecommons.org/licenses/by-nc-nd/4.0/deed.en).

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK Make-An-IMPACT (MSK, Clin Cancer Res 2023)
Targeted sequencing of 167 patients with Histiocytosis and Germ Cell Tumors using MSK-IMPACT, MSK-IMPACT-Heme, and MSK-ACCESS platforms.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK MetTropism (MSK, Cell 2021)
MSK-MET (Memorial Sloan Kettering - Metastatic Events and Tropisms) is a pan-cancer cohort of tumor genomic and clinical outcome data from 25,000 patients. The dataset identifies associations between tumor genomic alt…

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK-CHORD (MSK, Nature 2024)
Targeted sequencing of 25040 tumors from 24950 patients and their matched normals via MSK-IMPACT, along with clinical annotations, some of which are derived from natural language processing (denoted NLP). This data is…

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK-IMPACT 50K Clinical Sequencing Cohort (MSK, Cancer Cell 2026)
MSK-50K (Memorial Sloan Kettering - 50,000 patients) is a pan-cancer clinical sequencing cohort of 54,331 tumors and their matched normal samples, profiled using MSK-IMPACT. The dataset includes somatic mutations, gen…

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK-IMPACT and MSK-ACCESS Mixed Cohort (MSK, Nat Commun 2021)
Targeted sequencing of 1446 Tumor and cfDNA samples (1440 with matched normals) from MSK-IMPACT and MSK-ACCESS.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK-IMPACT Clinical Sequencing Cohort (MSK, Nat Med 2017)
Targeted sequencing of 10,000 clinical cases using the MSK-IMPACT assay

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
MSK-IMPACT Heme Tumors (MSK, 2022)
Targeted sequencing of 2383 myeloid and lymphoid neoplasms and their matched normals via MSK-IMPACT Heme panel.

Multiple or not classified from the titleMSK studiesSource code mixed
MSS Mixed Solid Tumors (Broad/Dana-Farber, Nat Genet 2018)
Whole exome sequencing of tumor/normal pairs and corresponding clinical outcomes from patients treated with immune checkpoint inhibitors across multiple cancer types including melanoma, non-small cell lung cancer, hea…

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Multiple Myeloma (Broad, Cancer Cell 2014)
Whole-exome or whole-genome sequencing of 203 multiple myeloma paired tumor/normal sample pairs.

Blood, lymph and bone marrowOther published and consortium studiesSource code pcmPubMed 1
Myelodysplasia (UTokyo, Nature 2011)
Whole exome sequencing of 29 myelodysplasia tumor/normal pairs.

Multiple or not classified from the titleOther published and consortium studiesSource code mdsPubMed 1
Myelodysplastic Syndromes (MDS IWG, IPSSM, NEJM Evidence 2022)
International Working Group for the prognosis of Myelodysplastic Syndromes. Derivation of the Molecular International Prognosis Scoring System for MDS. Comprehensive profiling of 3,323 treatment-naive MDS samples. Dat…

Blood, lymph and bone marrowOther published and consortium studiesSource code mds
Myeloproliferative Neoplasms (CIMR, NEJM 2013)
Whole exome sequencing of paired tumor/normal pairs from 151 cases of Myeloproliferative Neoplasms.

Blood, lymph and bone marrowOther published and consortium studiesSource code mpnPubMed 1
Myoepithelial Carcinomas of Soft Tissue (WCM, CSH Molecular Case Studies 2022)
Whole-exome sequencing of 12 Myoepithelial Carcinomas of Soft Tissue from two patients.

Sarcoma and soft tissueOther published and consortium studiesSource code stmyecPubMed 1
Nasopharyngeal Carcinoma (Singapore, Nat Genet 2014)
Whole exome sequencing of 56 NPC tumor/normal pairs.

Head and neckOther published and consortium studiesSource code npcPubMed 1
NCI-60 Cell Lines (NCI, Cancer Res 2012)
Whole-exome sequencing of 67 samples by NCI-60 cell line project; raw data at CellMiner (http://discover.nci.nih.gov/cellminer/loadDownload.do).

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Nerve Sheath Tumors (Johns Hopkins, 2024)
Whole-exome sequencing of 134 nerve sheath tumor samples with their matched normals. The raw data is contributed by Johns Hopkins University researchers funded by the Neurofibromatosis Therapeutic Acceleration Program…

Brain and nervous systemOther published and consortium studiesSource code nstPubMed 1
Neuroblastoma (AMC Amsterdam, Nature 2012)
Whole genome sequencing of 87 primary neuroblastoma tumors and their matched normals.

Brain and nervous systemOther published and consortium studiesSource code nblPubMed 1
Neuroblastoma (Broad, Nat Genet 2013)
Whole Genome and Whole Exome sequencing of 240 high-risk neuroblastoma tumor/normal pairs.

Brain and nervous systemOther published and consortium studiesSource code nblPubMed 1
Neuroblastoma (Broad, Nature 2015)
Whole-genome sequencing of 56 neuroblastoma tumor/normal pairs.

Brain and nervous systemOther published and consortium studiesSource code nblPubMed 1
Neuroendocrine Prostate Cancer (Multi-Institute, Nat Med 2016)
Whole exome sequencing of 114 metastatic tumor/normal pairs to understand genomic overlap between castration resistant adenocarcinoma (CRPC-Adeno) and neuroendocrine histologies (CRPC-NE).

ProstateOther published and consortium studiesSource code pradPubMed 1
Non-Hodgkin Lymphoma (BCGSC, Nature 2011)
Whole genome or whole exome sequencing of 14 NHL tumors and their matched normals.

Blood, lymph and bone marrowOther published and consortium studiesSource code nhlPubMed 1
Non-Small Cell Cancer (MSK, Cancer Discov 2017)
Targeted sequencing of 860 patients with metastatic lung adenocarcinoma

Multiple or not classified from the titleMSK studiesSource code luadPubMed 1
Non-Small Cell Lung Cancer (MSK, Cancer Cell 2018)
Whole-exome sequencing of 75 tumor/normal NSCLC pairs treated with PD-1 plus CTLA-4 blockade..

Lung and pleuraMSK studiesSource code nsclcPubMed 1
Non-Small Cell Lung Cancer (MSK, J Clin Oncol 2018)
IMPACT sequencing of 240 NSCLC tumor/normal pairs treated at MSKCC with anti-PD-(L)1 based therapy.

Lung and pleuraMSK studiesSource code nsclcPubMed 1
Non-Small Cell Lung Cancer (MSK, Science 2015)
Whole exome sequencing of tumor-normal tissue pairs from 16 non-small cell lung cancer samples.

Lung and pleuraMSK studiesSource code nsclcPubMed 1
Non-Small Cell Lung Cancer (TRACERx, NEJM & Nature 2017)
Whole-exome sequencing of 327 primary tumors with matched germline samples, and phylogenetic ctDNA sequencing of 96 pre- and 24 postoperative samples from 100 NSCLC TRACERx patients.

Lung and pleuraOther published and consortium studiesSource code nsclcPubMed 2
Non-Small Cell Lung Cancer (University of Turin, Lung Cancer 2017)
Targeted next-generation sequencing of 41 NSCLC samples.

Lung and pleuraOther published and consortium studiesSource code nsclcPubMed 1
Non-Small Cell Lung Cancer Brain Metastasis (MSK, Nat Commun 2023)
Targeted sequencing of 322 NSCLC brain metastasis and their matched normals via MSK-IMPACT.

Lung and pleuraMSK studiesSource code nsclcPubMed 1
Nonmuscle Invasive Bladder Cancer (MSK Eur Urol 2017)
IMPACT sequencing of 105 High Risk Nonmuscle Invasive Bladder Cancer samples.

Kidney and bladderMSK studiesSource code blcaPubMed 1
Normal Fibroblasts (UCSF, BioRxiv 2024)
Whole exome and targeted sequencing data of 23 normal fibroblast samples from human skin. The study is part of a broader analysis involving three distinct cell types, with findings stratified accordingly (see related…

Multiple or not classified from the titleOther published and consortium studiesSource code skinPubMed 1
Normal Keratinocytes (UCSF, BioRxiv 2024)
Whole exome and targeted sequencing data of 137 normal keratinocytes samples from human skin. The study is part of a broader analysis involving three distinct cell types, with findings stratified accordingly (see rela…

Multiple or not classified from the titleOther published and consortium studiesSource code skinPubMed 1
Normal Melanocytes (UCSF, Nature 2020)
Whole exome sequencing and targeted sequencing data of 308 normal melanocytes samples from human skin. In addition to data retrieved from four different articles, the study is part of a broader analysis involving thre…

Multiple or not classified from the titleOther published and consortium studiesSource code skinPubMed 4
Oral Squamous Cell Carcinoma (MD Anderson, Cancer Discov 2013)
Whole-exome sequencing of 40 oral squamous cell carcinoma tumor/normal sample pairs.

Multiple or not classified from the titleOther published and consortium studiesSource code hnscPubMed 1
Ovarian Cancer (Gray Foundation, Cancer Discov 2024)
Microregion transcriptomic data (GeoMx) and multiplex imaging (CyCIF) for High-Grade Serous ovarian Cancer Cases (HGSOC). This resource was supported by the Gray Foundation.

GynecologicOther published and consortium studiesSource code ovaryPubMed 1
Ovarian Cancer - MSK SPECTRUM (MSK, Nature 2022)
Multi-region, multi-modal profiling of 42 untreated high-grade serous ovarian cancer (HGSOC) tumor/normal pairs. This study reports an integrative analysis of mutational processes and their impact on the tumor microen…

GynecologicMSK studiesSource code hgsocPubMed 1
Ovarian Serous Cystadenocarcinoma (TCGA, Firehose Legacy)
TCGA Ovarian Serous Cystadenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/OV/20160128/). Previously known as TCGA Provisional.

GynecologicTCGA Firehose LegacySource code hgsoc
Ovarian Serous Cystadenocarcinoma (TCGA, Nature 2011)
Whole exome sequencing of 489 high-grade serous ovarian adenocarcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) (http://cancergenome.nih.gov/) Serous Ovarian Cancer project. 489 cases. Raw data via the TCGA…

GynecologicTCGA (other releases)Source code hgsocPubMed 1
Ovarian Serous Cystadenocarcinoma (TCGA, PanCancer Atlas)
Ovarian Serous Cystadenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/panca…

GynecologicTCGA PanCancer AtlasSource code hgsocPubMed 12
Pan-cancer Analysis of Advanced and Metastatic Tumors (BCGSC, Nature Cancer 2020)
Whole-genome and transcriptome sequencing of 570 advanced and metastatic cancers and their matched normals.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Pan-cancer analysis of whole genomes (ICGC/TCGA, Nature 2020)
WGS changes cataloged in 2,583 whole-cancer genomes and their matched normal tissues across 38 tumor types. Source data from UCSC Xena (https://xenabrowser.net/datapages/?cohort=PCAWG%20(specimen%20centric)&addHub=htt…

Multiple or not classified from the titleTCGA (other releases)Source code mixedPubMed 1
Pan-Cancer MSK-IMPACT MET Validation Cohort (MSK 2022)
Targeted sequencing of validation samples and their matched normal pairs (except 2samples)via MSK-IMPACT.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Pan-Lung Cancer (TCGA, Nat Genet 2016)
Whole-exome sequencing of 660 lung ADC and 484 lung SqCC tumor/normal pairs.

Lung and pleuraTCGA (other releases)Source code nsclcPubMed 1
Pancreatic Acinar Cell Carcinoma (MSK, JCO 2023)
Targeted sequencing of pancreatic acinar cell carcinoma tumor and normal samples via MSK-IMPACT.

PancreasMSK studiesSource code paac
Pancreatic Adenocarcinoma (ICGC, Nature 2012)
Whole-exome sequencing of 99 pancreatic samples and their matched normals.

PancreasOther published and consortium studiesSource code paadPubMed 1
Pancreatic Adenocarcinoma (MSK, Nat Med 2024)
Targeted sequencing of 2,336 pancreatic adenocarcinoma samples and their matched normals via MSK-IMPACT platform.

PancreasMSK studiesSource code pancreasPubMed 1
Pancreatic Adenocarcinoma (QCMG, Nature 2016)
Whole-genome and deep-exome sequencing analysis of 456 pancreatic ductal adenocarcinomas

PancreasOther published and consortium studiesSource code paadPubMed 1
Pancreatic Adenocarcinoma (TCGA, Firehose Legacy)
TCGA Pancreatic Adenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PAAD/20160128/). Previously known as TCGA Provisional.

PancreasTCGA Firehose LegacySource code paad
Pancreatic Adenocarcinoma (TCGA, PanCancer Atlas)
Pancreatic Adenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratla…

PancreasTCGA PanCancer AtlasSource code paadPubMed 12
Pancreatic Cancer (MSK, Cancer Cell 2024)
Targeted sequencing of 395 early stage pancreatic cancer cases and their matched normals via MSK-IMPACT. This data is available under the Creative Commons BY-NC-ND 4.0 license (https://creativecommons.org/licenses/by-…

PancreasMSK studiesSource code pancreasPubMed 1
Pancreatic Cancer (UTSW, Nat Commun 2015)
Whole exome sequencing of 109 micro-dissected pancreatic cancer cases and normal control tissue.

PancreasOther published and consortium studiesSource code paadPubMed 1
Pancreatic Ductal Adenocarcinoma (CPTAC, Cell 2021)
Whole-genome sequencing (WGS) and whole-exome sequencing (WES) of 140 pancreatic cancers with 67 normal adjacent tissues. Proteogenomic characterization generated by CPTAC.

PancreasOther published and consortium studiesSource code paadPubMed 1
Pancreatic Neuroendocrine Tumors (Johns Hopkins University, Science 2011)
Whole exome sequencing of 10 pancreatic neuroendocrine tumor patients.

PancreasOther published and consortium studiesSource code panetPubMed 1
Pancreatic Neuroendocrine Tumors (MSK, 2023)
Targeted sequencing of 65 Pancreatic Neuroendocrine tumors/normal pairs via MSK-IMPACT.

PancreasMSK studiesSource code pancreas
Pancreatic Neuroendocrine Tumors (Multi-Institute, Nature 2017)
Whole-genome sequencing of 98 pancreatic neuroendocrine tumours (PanNETs) and matched normal DNA pairs.

PancreasOther published and consortium studiesSource code panetPubMed 1
Papillary Thyroid Carcinoma (TCGA, Cell 2014)
Exome and whole genome sequencing of 496 papillary thyroid carcinoma tumor/normal pairs

Thyroid and endocrineTCGA (other releases)Source code thpaPubMed 1
Pediatric Acute Lymphoid Leukemia - Phase II (TARGET, 2018)
Whole genome or whole exome sequencing on 298 Pediatric Acute Lymphoid Leukemia - Phase II samples. Comprehensive profiling of ALL Phase 2 samples. TARGET data is intended exclusively for biomedical research using ped…

Blood, lymph and bone marrowNCI TARGETSource code bll
Pediatric Acute Myeloid Leukemia (St. Jude, Nat Genet 2024)
Molecular profiling of 887 pediatric acute myeloid leukemia cases and their matched normals using RNA-Seq, WES and WGS.

Blood, lymph and bone marrowOther published and consortium studiesSource code amlPubMed 1
Pediatric Acute Myeloid Leukemia (TARGET, 2018)
Whole genome or whole exome sequencing on 333 TARGET-AML samples. Comprehensive profiling of TARGET-AML samples. TARGET data is intended exclusively for biomedical research using pediatric data (i.e., the research obj…

Blood, lymph and bone marrowNCI TARGETSource code aml
Pediatric Brain Cancer (CPTAC/CHOP, Cell 2020)
Integrated proteogenomic characterization across major histological types of pediatric brain cancer . We report a comprehensive proteogenomics analysis, including whole-genome sequencing, RNA sequencing, and proteomic…

Brain and nervous systemOther published and consortium studiesSource code brainPubMed 1
Pediatric European MAPPYACTS Trial (Gustave Roussy, Cancer Discov 2022)
Whole-exome sequencing of 674 pediatric matched normal samples on multiple pathologies driven on mappyacts program and somatic mutation data for 484 single nucleotide alterations reported as potentially actionable, se…

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Pediatric Ewing Sarcoma (DFCI, Cancer Discov 2014)
Whole exome sequencing of 96 pediatric Ewing Sarcoma tumors and 11 cell lines.

Sarcoma and soft tissueOther published and consortium studiesSource code esPubMed 1
Pediatric Low-Grade Glioma (CTF, Acta Neuropathol 2021)
Whole genome sequencing of pediatric low-grade gliomas with neurofibromatosis. The data are contributed by researchers funded by the Children's Tumor Foundation (CTF). The reprocessing of the raw data is managed by NF…

Brain and nervous systemOther published and consortium studiesSource code lggnosPubMed 1
Pediatric Neuroblastoma (TARGET, 2018)
Whole genome or whole exome sequencing on 1089 NBL samples. Comprehensive profiling of 1089 NBL samples. TARGET data is intended exclusively for biomedical research using pediatric data (i.e., the research objectives…

Brain and nervous systemNCI TARGETSource code nbl
Pediatric Pan-cancer (Columbia U, Genome Med 2016)
Whole exome sequencing of 103 samples (88 with matched normals) from 88 high-risk pediatric cancer patients.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Pediatric Pan-Cancer (DKFZ, Nature 2017)
Whole-genome/exome sequencing of 961 Pediatric Cancer samples. Data generated from Pfister Lab & DKFZ/German Cancer Consortium.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Pediatric Pancan Tumors (MSK,Nat Commun. 2022)
Targeted NGS of mixed pediatric tumors from MSK-IMPACT testing.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Pediatric Preclinical Testing Consortium (CHOP, Cell Rep 2019)
Whole-exome sequencing of 261 patient derived xenografts (PDXs) samples from high-risk childhood cancers (with no matched normals). Website: PPTC (now, PIVOT) (https://preclinicalpivot.org)

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Pediatric Rhabdoid Tumor (TARGET, 2018)
Whole-genome sequencing 72 patients with Rhabdoid Tumor. Comprehensive profiling of 72 patients with Rhabdoid Tumor. TARGET data is intended exclusively for biomedical research using pediatric data (i.e., the research…

Sarcoma and soft tissueNCI TARGETSource code mrt
Pediatric Rhabdomyosarcomas (MSK, JCO Precis Oncol 2023)
Targeted sequencing of 24 cases with extremity rhabdomyosarcoma tumors and their matched normals (MSK Cohort) via MSK-IMPACT.

Sarcoma and soft tissueMSK studiesSource code rmsPubMed 1
Pediatric solid tumor PDXs (UTHSA, Nat Commun 2023)
Whole genome and whole exome sequencing of 68 patient-derived xenografts and 65 pediatric patient tumors.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Pediatric Wilms' Tumor (TARGET, 2018)
Whole-exome sequencing of 657 Wilms' tumor samples. Comprehensive profiling of 657 Wilms' Tumor samples. TARGET data is intended exclusively for biomedical research using pediatric data (i.e., the research objectives…

Kidney and bladderNCI TARGETSource code wt
Pheochromocytoma and Paraganglioma (TCGA, Cell 2017)
Whole exome sequencing of 178 Pheochromocytoma or Paraganglioma tumor/normal pairs.

Brain and nervous systemTCGA (other releases)Source code soft_tissuePubMed 1
Pheochromocytoma and Paraganglioma (TCGA, Firehose Legacy)
TCGA Pheochromocytoma and Paraganglioma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PCPG/20160128/). Previously known as TCGA Provisional.

Brain and nervous systemTCGA Firehose LegacySource code mnet
Pheochromocytoma and Paraganglioma (TCGA, PanCancer Atlas)
Pheochromocytoma and Paraganglioma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/panc…

Brain and nervous systemTCGA PanCancer AtlasSource code soft_tissuePubMed 12
Pilocytic Astrocytoma (ICGC, Nature Genetics 2013)
Whole-genome sequencing of 96 pilocytic astrocytoma tumor/normal pairs. Conducted by the International Cancer Genome Consortium (ICGC) PedBrain Tumor Project.

Brain and nervous systemOther published and consortium studiesSource code pastPubMed 1
Pituitary Adenoma (MSK, Acta Neuropathologica 2024)
Targeted sequencing of 104 pituitary adenoma samples and their matched normals using MSK-IMPACT.

Thyroid and endocrineMSK studiesSource code ptadPubMed 1
Pleural Mesothelioma (MSK, Clin Cancer Res 2024)
Targeted sequencing of 14 genomic near-haploidization (GNH) pleural mesothelioma samples and their matched normals via MSK-IMPACT.

Lung and pleuraMSK studiesSource code plmesoPubMed 1
Pleural Mesothelioma (NYU, Cancer Res 2015)
Whole-exome sequencing of 22 malignant pleural mesotheliomas (PLMESO) tumor/normal pairs.

Lung and pleuraOther published and consortium studiesSource code plmesoPubMed 1
Poorly-Differentiated and Anaplastic Thyroid Cancers (MSK, JCI 2016)
Targeted sequencing of 341 cancer genes from 117 patient-derived PDTCs and ATCs

Thyroid and endocrineMSK studiesSource code thyroidPubMed 1
Pre-cancer Colorectal Polyps (HTAN Vanderbilt, Cell 2021)
Whole-exome sequencing and single-cell transcriptomics analysis of 61 pre-malignant colorectal polyps (discovery and validation sets) and their matched normal colon tissues.

ColorectalOther published and consortium studiesSource code coadreadPubMed 1
Primary Central Nervous System Lymphoma (Mayo Clinic, Clin Cancer Res 2015)
Exome sequencing of 19 immunocompetent primary central nervous system lymphoma (PCNSL) samples.

Blood, lymph and bone marrowOther published and consortium studiesSource code nhlPubMed 1
Primary CNS Lymphoma (MSK, Clin Cancer Res 2024)
Targeted sequencing of 86 samples from 44 patients with primary CNS lymphoma with their matched normals via HemePACT. A Phase II study assessing Long-Term Response to Ibrutinib Monotherapy in recurrent or refractory C…

Brain and nervous systemMSK studiesSource code pcnslPubMed 1
Prostate Adenocarcinoma (Broad/Cornell, Cell 2013)
Whole genome sequencing of 57 prostate tumor and matches normal tissues.

ProstateOther published and consortium studiesSource code pradPubMed 1
Prostate Adenocarcinoma (Broad/Cornell, Nat Genet 2012)
Whole-exome sequencing of 112 prostate adenocarcinomas and matched normal samples. Generated by Levi Garraway's lab at the Broad Institute and Mark Rubin's lab at Cornell.

ProstateOther published and consortium studiesSource code pradPubMed 1
Prostate Adenocarcinoma (CPC-GENE, Nature 2017)
Whole-genome/exome sequencing of 477 prostate samples from CPC-GENE and public data sets, including TCGA-PRAD.

ProstateOther published and consortium studiesSource code pradPubMed 1
Prostate Adenocarcinoma (Fred Hutchinson CRC, Nat Med 2016)
Whole-exome sequencing, array comparative genomic hybridization (CGH) and RNA transcript profiling of 176 tumors from 63 patients with disseminated prostate cancer with matched normals.

ProstateOther published and consortium studiesSource code pradPubMed 1
Prostate Adenocarcinoma (MSK, Cancer Cell 2010)
Comprehensive profiling of 218 prostate tumors (181 primaries, 37 metastases) and 14 prostate cancer cell lines and xenografts. MSKCC Prostate Oncogenome Project. Normalized flat data files (http://cbio.mskcc.org/canc…

ProstateMSK studiesSource code pradPubMed 1
Prostate Adenocarcinoma (MSK, Clin Cancer Res. 2022)
Targeted sequencing of 1417 Prostate Adenocarcinoma tumor/normal sample pairs via MSK-IMPACT to analyze the significance of PIK3R1 alterations.

ProstateMSK studiesSource code pradPubMed 1
Prostate Adenocarcinoma (MSK, Eur Urol 2020)
Targeted sequencing of 1465 prostate adenocarcinoma tumor/normal pairs via MSK-IMPACT.

ProstateMSK studiesSource code pradPubMed 1
Prostate Adenocarcinoma (MSK, PNAS 2014)
Genome-wide copy number profiling in 104 primary prostate cancer tumor/normal pairs. Raw data via GEO (GSE54691) (http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE54691).

ProstateMSK studiesSource code pradPubMed 1
Prostate Adenocarcinoma (MSK/DFCI, Nature Genetics 2018)
Whole exome Sequencing of 1013 prostate cancer samples and their matched normals.

ProstateMSK studiesSource code pradPubMed 1
Prostate Adenocarcinoma (SMMU, Eur Urol 2017)
Whole-genome and transcriptome sequencing of 65 Prostate Adenocarcinoma tumor/normal pairs.

ProstateOther published and consortium studiesSource code pradPubMed 1
Prostate Adenocarcinoma (TCGA, Cell 2015)
Whole exome and/or whole genome sequencing of 333 primary prostate adenocarcinoma tumor/normal pairs; raw data at the NCI (https://tcga-data.nci.nih.gov/docs/publications/prad_2015/).

ProstateTCGA (other releases)Source code pradPubMed 1
Prostate Adenocarcinoma (TCGA, Firehose Legacy)
TCGA Prostate Adenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PRAD/20160128/). Previously known as TCGA Provisional.

ProstateTCGA Firehose LegacySource code prad
Prostate Adenocarcinoma (TCGA, PanCancer Atlas)
Prostate Adenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/…

ProstateTCGA PanCancer AtlasSource code pradPubMed 12
Prostate Adenocarcinoma Organoids (MSK, Cell 2014)
Exome sequencing of 12 advanced prostate cancer samples and matched organoids

ProstateMSK studiesSource code pradPubMed 1
Prostate Cancer (DKFZ, Cancer Cell 2018)
Whole genome and transcriptome sequencing of tumor/normal pairs from 292 prostate cancer patients.

ProstateOther published and consortium studiesSource code prostatePubMed 1
Prostate Cancer (MSK, Cell Metab 2020)
MSK-IMPACT Sequencing of 18 prostate cancer tumor/normal pairs.

ProstateMSK studiesSource code prostatePubMed 1
Prostate Cancer (MSK, Clin Cancer Res 2024)
Targeted sequencing of 2,257 prostate cancer patient samples and their matched normals via MSK-IMPACT platform. This data is available under the Creative Commons BY-NC-ND 4.0 license (https://creativecommons.org/licen…

ProstateMSK studiesSource code prostatePubMed 1
Prostate Cancer (MSK, JCO Precis Oncol 2017)
IMPACT sequencing of 504 prostate cancer tumor/normal pairs.

ProstateMSK studiesSource code pradPubMed 1
Prostate Cancer (MSK, Science 2022)
Targeted sequencing and whole exome sequencing of 35 prostate cancer tumors, organoids and cell lines via MSK-IMPACT.

ProstateMSK studiesSource code pradPubMed 1
Prostate Cancer Brain Metastases (Bern, Nat Commun. 2022)
Prostate Cancer Brain Metastases, Switzerland. Dataset was generated in 2019 by Antonio Rodriguez, John Gallon, Salvatore Piscuoglio and Mark Rubin.

ProstateOther published and consortium studiesSource code prostatePubMed 1
Prostate Cancer MDA PCa PDX (MD Anderson, Clin Cancer Res 2024)
Targeted sequencing and whole-genome sequencing of 88 MD Anderson Prostate Cancer PDX models derived from 38 patients with tumor.

ProstateOther published and consortium studiesSource code prostatePubMed 1
Prostate Cancer-IDH Driver Mutant Cohort (MSK, 2024)
Targeted sequencing of 96 prostate cancer patients.

ProstateMSK studiesSource code prad
Proteogenomic landscape of breast cancer (CPTAC, Cell 2020)
Proteogenomic landscape of breast cancer tumorigenesis and targeted therapy. Whole exome sequencing 122 samples. Generated by CPTAC.

BreastOther published and consortium studiesSource code brcaPubMed 1
Race Differences in Prostate Cancer (MSK, 2021)
Targeted sequencing of 2,069 prostate cancers from different races via MSK-IMPACT.

ProstateMSK studiesSource code pradPubMed 1
RAD51B Associated Mixed Cancers (MSK, NPJ Breast Cancer 2021)
Targeted sequencing of 19 samples with RAD51B loss-of-function variants and their matched normals. Samples confer susceptibility to hereditary breast and ovarian cancers, resulting in homologous recombination-deficien…

BreastTCGA (other releases)Source code mixedPubMed 1
Rectal Cancer (MSK, Nature Medicine 2022)
DNA and RNA sequencing of 738 primary rectal tumors.

ColorectalMSK studiesSource code bowelPubMed 1
Rectal Cancer (MSK,Nature Medicine 2019)
MSK-IMPACT targeted sequencing of matched rectal cancer tumor and tumoroid samples.

ColorectalMSK studiesSource code coadreadPubMed 1
Recurrent and Metastatic Head & Neck Cancer (MSK, JAMA Oncol 2016)
Targeted sequencing of 151 patients with advanced, treatment resistant head and neck tumors

Head and neckMSK studiesSource code head_neckPubMed 1
Renal Cell Carcinoma (IMmotion150 Clinical Trial, Nat Med. 2018) - iAtlas Harmonized
A randomized phase 2 study of atezolizumab (anti-PD-L1) alone or combined with bevacizumab (anti-VEGF) versus sunitinib in 263 patients with treatment-naive metastatic renal cell carcinoma. The reprocessing of raw seq…

Kidney and bladderOther published and consortium studiesSource code rccPubMed 1
Renal Cell Carcinoma (St. James, Clin Cancer Res 2023)
Targeted sequencing of 943 renal clear cell carcinoma samples and their matched normals.

Kidney and bladderOther published and consortium studiesSource code ccrccPubMed 1
Renal Clear Cell Carcinoma (UTokyo, Nat Genet 2013)
Whole exome and/or whole genome sequencing of 106 clear cell renal cell carcinoma tumor/normal pairs.

Kidney and bladderOther published and consortium studiesSource code ccrccPubMed 1
Renal Non-Clear Cell Carcinoma (Genentech, Nat Genet 2014)
Whole exome sequencing of 139 samples with matched normals and RNA-sequencing of 7 samples (5 samples with matched normals) from 145 Renal Non-Clear Cell Carcinoma (nccRCC) patients.

Kidney and bladderOther published and consortium studiesSource code nccrccPubMed 1
Retinoblastoma (MSK, Cancers 2021)
Targeted sequencing of 83 Retinoblastoma tumor-normal pairs via MSK-IMPACT. Genomic data provided is limited to somatic alterations.

Skin and eyeMSK studiesSource code rblPubMed 1
Rhabdoid Cancer (BCGSC, Cancer Cell 2016)
Whole-genome sequencing of tumor-normal sample pairs from 40 patients with Malignant Rhabdoid Cancer.

Sarcoma and soft tissueOther published and consortium studiesSource code mrtPubMed 1
Rhabdomyosarcoma (NIH, Cancer Discov 2014)
Whole-genome or whole-exome sequencing of 43 rhabdomyosarcoma tumor/normal pairs.

Sarcoma and soft tissueOther published and consortium studiesSource code rmsPubMed 1
Rhabdomyosarcomas (MSK, NPJ Precis Oncol 2023)
Sequential targeted sequencing on 20 rhabdomyosarcoma tumors and their matched normals from the MSK cohort using MSK-IMPACT.

Sarcoma and soft tissueMSK studiesSource code rmsPubMed 1
Sarcoma (MSK, J Pathol 2023)
Targeted sequencing of 82 radiation-associated sarcomas and their matched normals via MSK-IMPACT.

Sarcoma and soft tissueMSK studiesSource code mixedPubMed 1
Sarcoma (MSK, Nat Commun. 2022)
Targeted Sequencing of 2138 Sarcoma samples and matched normals via MSK-IMPACT.

Sarcoma and soft tissueMSK studiesSource code soft_tissuePubMed 1
Sarcoma (MSKCC/Broad, Nat Genet 2010)
Sanger-sequenced 226 protein-coding genes (3,849 exons and adjacent intronic) on 207 samples (with 205 matched normals) encompassing 7 major sarcoma subtypes.

Sarcoma and soft tissueMSK studiesSource code soft_tissuePubMed 1
Sarcoma (TCGA, Firehose Legacy)
TCGA Sarcoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/SARC/20160128/). Previously known as TCGA Provisional.

Sarcoma and soft tissueTCGA Firehose LegacySource code soft_tissue
Sarcoma (TCGA, PanCancer Atlas)
Sarcoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.h…

Sarcoma and soft tissueTCGA PanCancer AtlasSource code soft_tissuePubMed 11
Sarcoma (UCLA, Cell 2024)
Targeted sequencing of 63 out of 194 soft tissue sarcoma samples using OncoPanel v3 platform.

Sarcoma and soft tissueOther published and consortium studiesSource code soft_tissuePubMed 1
Schwannoma (Children's Tumor Foundation, Acta Neuropathologica 2020)
Whole exome sequencing of 30 patients with schwannomatosis-associated schwannomas, along with their matched normal samples. These data originate from the Synodos for Schwannomatosis project and were contributed by res…

Brain and nervous systemOther published and consortium studiesSource code schwPubMed 1
Skin Cutaneous Melanoma (Broad, Cell 2012)
Whole-exome sequencing of 121 melanoma samples with matched normals.

Skin and eyeOther published and consortium studiesSource code skcmPubMed 1
Skin Cutaneous Melanoma (TCGA, Firehose Legacy)
TCGA Skin Cutaneous Melanoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/SKCM/20160128/). Previously known as TCGA Provisional.

Skin and eyeTCGA Firehose LegacySource code skcm
Skin Cutaneous Melanoma (TCGA, PanCancer Atlas)
Skin Cutaneous Melanoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/…

Skin and eyeTCGA PanCancer AtlasSource code skcmPubMed 12
Skin Cutaneous Melanoma (Yale, Nat Genet 2012)
Exome sequencing of 147 melanoma samples with 99 matched normals.

Skin and eyeOther published and consortium studiesSource code skcmPubMed 1
Skin Cutaneous Melanoma(Broad, Cancer Discov 2014)
Exome Sequencing of tumors (with matched normals) from 45 patients with BRAFV600-mutant metastatic melanoma who received vemurafenib or dabrafenib monotherapy.

Skin and eyeOther published and consortium studiesSource code melPubMed 1
Small Cell Carcinoma of the Ovary (MSK, Nat Genet 2014)
Targeted sequencing of 12 SCCO paired tumor and normal samples.

GynecologicMSK studiesSource code sccoPubMed 1
Small Cell Lung Cancer (CLCGP, Nat Genet 2012)
Comprehensive whole exam profiling of 29 small cell lung cancer samples. Generated by the Clinical Lung Cancer Genome Project. Data from Peifer et al., Nat Genet 2012 (German group). Paper states data available at htt…

Lung and pleuraOther published and consortium studiesSource code sclcPubMed 1
Small Cell Lung Cancer (Johns Hopkins, Nat Genet 2012)
Whole exome-sequencing of 80 human SCLCs, including 36 primary SCLC human tumor and adjacent normal sample pairs and 17 paired SCLC cell lines and their patient-matched lymphoblastoid lines, as well as 4 primary SCLC…

Lung and pleuraOther published and consortium studiesSource code sclcPubMed 1
Small Cell Lung Cancer (U Cologne, Nature 2015)
Whole-genome sequencing of 120 small cell lung cancer(SCLC) tumour samples and matched normal material. Data from George et al., Nature 2015 (German group). Paper states data available in GEO (GSE69091).

Lung and pleuraOther published and consortium studiesSource code sclcPubMed 1
Small Cell Lung Cancer (UC, Nature 2024)
Whole genome and whole exome sequencing of 160 small cell lung cancer tumors and their matched normals from 65 patients.

Lung and pleuraOther published and consortium studiesSource code lungPubMed 1
Small-Cell Lung Cancer (Multi-Institute, Cancer Cell 2017)
Whole Exome Sequencing of 10 paired chemosensitive and chemoresistant SCLC PDX. Data from Gardner et al., Cancer Cell 2017. Data available in dbGaP (PHS001249.v1.p1).

Lung and pleuraOther published and consortium studiesSource code sclcPubMed 1
Soft Tissue and Bone Sarcoma (MSK, Nat Commun 2022)
Targeted sequencing of 7,494 soft tissue and bone sarcoma samples using the Foundation Medicine platform.

Sarcoma and soft tissueMSK studiesSource code soft_tissuePubMed 1
Solitary Fibrous Tumors (SYSUCC, Nat Commun 2023)
Targeted sequencing of 131 solitary fibrous tumor samples constituting the SYSUCC discovery cohort.

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Squamous Cell Carcinoma of the Vulva (CUK, Exp Mol Med 2018)
Whole exome sequencing of tumor/normal pairs from 15 vulvar squamous cell carcinomas.

GynecologicOther published and consortium studiesSource code vscPubMed 1
Stomach Adenocarcinoma (Pfizer and UHK, Nat Genet 2014)
Whole genome sequencing of 100 gastric cancer tumor-normal pairs from the University of Hong Kong and Pfizer.

Esophagus and stomachOther published and consortium studiesSource code stadPubMed 1
Stomach Adenocarcinoma (TCGA, Firehose Legacy)
TCGA Stomach Adenocarcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/STAD/20160128/). Previously known as TCGA Provisional.

Esophagus and stomachTCGA Firehose LegacySource code stad
Stomach Adenocarcinoma (TCGA, Nature 2014)
Whole-exome sequencing of 295 primary gastric adenocarcinomas tumors with matched normals. TCGA Stomach Adenocarcinoma Project; raw data at the NCI (https://tcga-data.nci.nih.gov/docs/publications/stad_2014/).

Esophagus and stomachTCGA (other releases)Source code stadPubMed 1
Stomach Adenocarcinoma (TCGA, PanCancer Atlas)
Stomach Adenocarcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/p…

Esophagus and stomachTCGA PanCancer AtlasSource code stadPubMed 11
Stomach Adenocarcinoma (U Tokyo, Nat Genet 2014)
Whole exome sequencing of 30 diffuse-type gastric adenocarcinoma samples (with matched normals) from the University of Tokyo.

Esophagus and stomachOther published and consortium studiesSource code stadPubMed 1
Stomach Adenocarcinoma (UHK, Nat Genet 2011)
Exome sequencing of 22 gastric cancer samples with matched normals.

Esophagus and stomachOther published and consortium studiesSource code stadPubMed 1
SUMMIT - Neratinib Basket Study (Multi-Institute, Nature 2018)
MSK-IMPACT sequencing of 86 patients with HER2- and HER3-mutant cancers

Multiple or not classified from the titleOther published and consortium studiesSource code mixedPubMed 1
Testicular Germ Cell Cancer (TCGA, Firehose Legacy)
TCGA Testicular Germ Cell Cancer. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/TGCT/20160128/). Previously known as TCGA Provisional.

Germ cell and testisTCGA Firehose LegacySource code nsgct
Testicular Germ Cell Tumors (TCGA, PanCancer Atlas)
Testicular Germ Cell Tumors TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancancerat…

Germ cell and testisTCGA PanCancer AtlasSource code testisPubMed 11
The Angiosarcoma Project (Provisional, July 2020)
The Angiosarcoma Project (www.ascproject.org) is an ongoing patient-driven initiative. This provisional dataset is currently derived from 83 samples, including tumor specimens (FFPE and cfDNA) from 62 angiosarcoma pat…

Sarcoma and soft tissueOther published and consortium studiesSource code angs
The Angiosarcoma Project - Count Me In (Nature Medicine, 2020)
The Angiosarcoma Project is an ongoing patient-driven initiative. This archived Angiosarcoma Project dataset was analyzed in the linked Nature Medicine 2020 manuscript, and is derived from 48 samples from 36 angiosarc…

Sarcoma and soft tissueOther published and consortium studiesSource code angsPubMed 1
The Angiosarcoma Project - Count Me In (Provisional, April 2025)
The Angiosarcoma Project is an ongoing patient-driven initiative. This provisional dataset is currently derived from 328 samples, including tumor specimens (FFPE and cfDNA) from 274 angiosarcoma patients subjected to…

Sarcoma and soft tissueOther published and consortium studiesSource code angs
The Metastatic Breast Cancer Project (Archived, 2020)
The Metastatic Breast Cancer Project (www.mbcproject.org) is an ongoing patient-driven initiative. This dataset release is derived from 237 samples, including both primary and/or metastatic tumor specimens (FFPE) from…

BreastOther published and consortium studiesSource code brca
The Metastatic Breast Cancer Project (Provisional, December 2021)
The Metastatic Breast Cancer Project (www.mbcproject.org (https://mbcproject.org/)) is an ongoing patient-driven initiative. This dataset release is derived from 379 samples, including both primary and/or metastatic t…

BreastOther published and consortium studiesSource code brca
The Metastatic Prostate Cancer Project (Provisional, June 2021)
The Metastatic Prostate Cancer Project is a patient-driven initiative. This study includes genomic data, cfDNA tumor fractions, patient-reported data (pre-pended as PRD), medical record data (MedR), and pathology repo…

ProstateOther published and consortium studiesSource code prostate
Thoracic Cancer (MSK, Nat Commun 2021)
Targeted sequencing of tumor and PDX thoracic samples.

Multiple or not classified from the titleMSK studiesSource code lungPubMed 1
Thoracic PDX (MSK, Provisional)
Targeted sequencing of thoracic PDX lines to characterize genetic alterations in 318 tumor/normal pairs via MSK-IMPACT. This cohort is a PDX tracker of all lung cancer PDX generated at MSK that have been through IMPAC…

Multiple or not classified from the titleMSK studiesSource code lung
Thymic Epithelial Tumors (NCI, Nat Genet 2014)
Whole exome sequencing of 28 thymic epithelial tumors (TETs) with matched normals

ThymusOther published and consortium studiesSource code tetPubMed 1
Thymoma (TCGA, Firehose Legacy)
TCGA Thymoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/THYM/20160128/). Previously known as TCGA Provisional.

ThymusTCGA Firehose LegacySource code thym
Thymoma (TCGA, PanCancer Atlas)
Thymoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.h…

ThymusTCGA PanCancer AtlasSource code thymPubMed 11
Thyroid Carcinoma (TCGA, Firehose Legacy)
TCGA Thyroid Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/THCA/20160128/). Previously known as TCGA Provisional.

Thyroid and endocrineTCGA Firehose LegacySource code thpa
Thyroid Carcinoma (TCGA, PanCancer Atlas)
Thyroid Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/pancan…

Thyroid and endocrineTCGA PanCancer AtlasSource code thpaPubMed 12
TMB and Immunotherapy (MSK, Nat Genet 2019)
Genomic and survival data from 1661 tumor-normal pairs from 1661 patients with various cancer types sequenced with the MSK-IMPACT assay.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Triple Negative Breast Cancer (DLDCCC, Cancer Discov 2022)
Whole exome sequencing of 59 pre-treatment and 16 post-treatment triple-negative breast cancer samples and their matched normals as part of micro-scaled proteogenomic analysis to identify markers of chemotherapy resis…

BreastOther published and consortium studiesSource code brcaPubMed 1
Triple-Negative Breast Cancer (FUSCC, Cell Research 2020)
Targeted sequencing of 69 refractory metastatic triple-negative breast cancer patients and their matched normal samples as part of the FUTURE trial.

BreastOther published and consortium studiesSource code brcaPubMed 1
Tumors with TRK fusions (MSK, Clin Cancer Res 2020)
Tumors with TRK fusions based on MSK-IMPACT targeted sequencing.

Multiple or not classified from the titleMSK studiesSource code mixedPubMed 1
Unclassified Renal Cell Carcinoma (MSK, Nature 2016)
Targeted sequencing of 62 high-grade primary Unclassified Renal Cell Carcinoma tumor samples with matched normals.

Kidney and bladderMSK studiesSource code urccPubMed 1
Upper Tract Urothelial Cancer (MSK, Eur Urol 2015)
Next-generation sequencing (MSK-IMPACT) on all protein-coding exons of 300 cancer associated genes of 85 Upper Tract Urothelial Carcinoma tumor samples and paired normals.

Kidney and bladderMSK studiesSource code utucPubMed 1
Upper Tract Urothelial Carcinoma (Cornell/Baylor/MDACC, Nat Commun 2019)
Whole exome sequencing (37 samples) and RNA-seq analysis (32 samples) of 47 upper tract urothelial carcinoma patients.

Kidney and bladderOther published and consortium studiesSource code utucPubMed 1
Upper Tract Urothelial Carcinoma (IGBMC, Genome Biology 2021)
Whole-exome sequencing of 30 upper-tract urothelial carcinoma patients and their matched normals.

Kidney and bladderOther published and consortium studiesSource code utucPubMed 1
Upper Tract Urothelial Carcinoma (MSK, Nat Commun 2020)
Targeted Sequencing of 119 upper tract urothelial carcinoma tumor/normal pairs.

Kidney and bladderMSK studiesSource code utucPubMed 1
Upper Tract Urothelial Carcinoma PDX (MSK, Nat Commun 2020)
MSK-IMPACT sequencing of 34 upper tract urothelial patients and the matching PDX or PDC generated from 17 patient tumors.

Kidney and bladderMSK studiesSource code utucPubMed 1
Urothelial Cancer Patient Derived Organoids (MSK, 2025)
Targeted sequencing of 90 urothelial cancer tumors, organoids, xenografts, and matched normal samples was performed using MSK-IMPACT as part of the study Determinants of Sensitivity to HER2-targeted Antibody Drug Conj…

Kidney and bladderMSK studiesSource code blca
Urothelial Carcinoma (BCAN/HCRN, Nat Commun 2022)
Urothelial Cancer-GENOmic analysis to improve patient outcomes and research.

Kidney and bladderOther published and consortium studiesSource code blcaPubMed 1
Urothelial Carcinoma (Cornell/Trento, Nat Gen 2016)
Whole-exome sequencing of 72 tumor samples (with 32 matched normals) in Urothelial Carcinoma.

Kidney and bladderOther published and consortium studiesSource code blcaPubMed 1
Uterine Carcinosarcoma (Johns Hopkins, Nat Commun 2014)
Whole exome sequencing (WXS) of 22 uterine carcinosarcoma/uterine malignant mixed Mullerian (UCS) tumors with matched normals.

GynecologicOther published and consortium studiesSource code ucsPubMed 1
Uterine Carcinosarcoma (TCGA, Firehose Legacy)
TCGA Uterine Carcinosarcoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UCS/20160128/). Previously known as TCGA Provisional.

GynecologicTCGA Firehose LegacySource code ucs
Uterine Carcinosarcoma (TCGA, PanCancer Atlas)
Uterine Carcinosarcoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/p…

GynecologicTCGA PanCancer AtlasSource code ucsPubMed 11
Uterine Clear Cell Carcinoma (NIH, Cancer 2017)
Whole exome sequencing of paired tumor-normal DNAs from 16 cases of clear cell endometrial tumors.

GynecologicOther published and consortium studiesSource code ucccPubMed 1
Uterine Corpus Endometrial Carcinoma (TCGA, Firehose Legacy)
TCGA Uterine Corpus Endometrial Carcinoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UCEC/20160128/). Previously known as TCGA Provisional.

GynecologicTCGA Firehose LegacySource code ucec
Uterine Corpus Endometrial Carcinoma (TCGA, Nature 2013)
Whole exome sequencing of 373 endometrial carcinoma tumors with matched normals. TCGA Uterine Corpus Endometrial Carcinoma project; raw data at the NCI (https://tcga-data.nci.nih.gov/docs/publications/ucec_2013/).

GynecologicTCGA (other releases)Source code ucecPubMed 1
Uterine Corpus Endometrial Carcinoma (TCGA, PanCancer Atlas)
Uterine Corpus Endometrial Carcinoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pa…

GynecologicTCGA PanCancer AtlasSource code ucecPubMed 12
Uterine Sarcoma/Mesenchymal (MSK, Clin Cancer Res 2020)
Targeted Sequencing of 108 Uterine Sarcoma/Mesenchymal tumor/normal pairs from 107 patients.

GynecologicMSK studiesSource code usarcPubMed 1
Uveal Melanoma (QIMR, Oncotarget 2016)
Whole-genome or whole-exome sequencing of tumor/normal pairs from 28 uveal melanoma samples.

Skin and eyeOther published and consortium studiesSource code umPubMed 1
Uveal Melanoma (TCGA, Firehose Legacy)
TCGA Uveal Melanoma. Source data from GDAC Firehose (http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UVM/20160128/). Previously known as TCGA Provisional.

Skin and eyeTCGA Firehose LegacySource code um
Uveal Melanoma (TCGA, PanCancer Atlas)
Uveal melanoma TCGA PanCancer data. The original data is here (https://gdc.cancer.gov/about-data/publications/pancanatlas). The publications are here (https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/…

Skin and eyeTCGA PanCancer AtlasSource code umPubMed 11