Available Studies by function

cBioPortalData()

These studies are available through the cBioPortal API, i.e., cBioPortalData function.

NOTES

  • This list is different from those studies available via the cBioDataPack function.

  • Scroll to the right for more information (esp. for the studyId column)

List of available studies from cBioPortalData API
name shortName description publicStudy pmid citation groups status importDate allSampleCount studyId cancerTypeId referenceGenome
Oral Squamous Cell Carcinoma (MD Anderson, Cancer Discov 2013) Head & neck (MDA) Comprehensive profiling of 40 oral squamous cell carcinoma tumor/normal sample pairs. TRUE 23619168 Pickering et al. Cancer Discov 2013 0 2019-02-19 00:00:00 40 hnsc_mdanderson_2013 hnsc hg19
Hepatocellular Carcinomas (INSERM, Nat Genet 2015) HCC (Inserm, 2015) Whole-exome sequencing of 243 liver tumors and matched normals. TRUE 25822088 Schulze et al. Nat Genet 2013 PUBLIC 0 2019-02-19 00:00:00 243 hcc_inserm_fr_2015 hcc hg19
Uveal Melanoma (QIMR, Oncotarget 2016) UM (QIMR) Whole-genome or whole-exome sequencing of tumor/normal pairs from 28 uveal melanoma samples. TRUE 26683228 Johansson et al. Oncotarget 2016 PUBLIC 0 2019-02-19 00:00:00 28 um_qimr_2016 um hg19
Neuroblastoma (AMC Amsterdam, Nature 2012) NBL (AMC) Whole genome sequencing of 87 primary neuroblastoma tumors and their matched normals. TRUE 22367537 Molenaar et al. Nature 2012 PUBLIC 0 2019-02-20 00:00:00 87 nbl_amc_2012 nbl hg19
Nasopharyngeal Carcinoma (Singapore, Nat Genet 2014) NPC (Singapore) Whole exome sequencing of 56 NPC tumor/normal pairs. TRUE 24952746 Lin et al. Nat Genet 2014 PUBLIC 0 2019-02-20 00:00:00 56 npc_nusingapore npc hg19
Neuroblastoma (Broad, Nature 2015) NBL (Cologne 2015) Whole-genome sequencing of 56 neuroblastoma tumor/normal pairs. TRUE 26466568 Peifer et al. Nature 2015 0 2019-02-20 00:00:00 56 nbl_ucologne_2015 nbl hg19
Myelodysplasia (UTokyo, Nature 2011) MDS (Tokyo) Whole exome sequencing of 29 myelodysplasia tumor/normal pairs. TRUE 21909114 Yoshida et al. Nature 2011 0 2019-02-20 00:00:00 29 mds_tokyo_2011 mds hg19
Insulinoma (Shanghai, Nat Commun 2013) Panet (Shanghai 2013) Whole exome sequencing of 10 benign insulinoma tumor/normal pairs. TRUE 24326773 Cao et al. Nat Commun 2013 0 2019-02-21 00:00:00 10 panet_shanghai_2013 panet hg19
Pleural Mesothelioma (NYU, Cancer Res 2015) PLMESO (NYU 2015) Whole-exome sequencing of 22 malignant pleural mesotheliomas (PLMESO) tumor/normal pairs. TRUE 25488749 Guo et al. Cancer Res 2015 0 2019-02-21 00:00:00 22 plmeso_nyu_2015 plmeso hg19
Pilocytic Astrocytoma (ICGC, Nature Genetics 2013) PAST (Nature Genetics, 2013) Whole-genome sequencing of 96 pilocytic astrocytoma tumor/normal pairs. Conducted by the International Cancer Genome Consortium (ICGC) PedBrain Tumor Project. TRUE 23817572 Jones et al. Nature Genetics 2013 PUBLIC 0 2019-02-21 00:00:00 96 past_dkfz_heidelberg_2013 past hg19
Liver Hepatocellular Carcinoma (RIKEN, Nat Genet 2012) Liver (RIKEN) Whole-genome sequencing of 27 hepatocellular carcinoma tumor/norma pairs from RIKEN. TRUE 22634756 Fujimoto et al. Nat Genet 2012 PUBLIC 0 2019-02-22 00:00:00 27 lihc_riken hcc hg19
Medulloblastoma (ICGC, Nature 2012) MBL (ICGC) Comprehensive profiling of 125 matched tumor and germline medulloblastoma samples TRUE 22832583 Jones et al. Nature 2012 PUBLIC 0 2019-02-22 00:00:00 125 mbl_icgc mbl hg19
Medulloblastoma (Sickkids, Nature 2016) MBL (Sickkids 2016) Whole-genome sequencing of 46 recurrent medulloblastoma samples. TRUE 26760213 Morrissy et al. Nature 2016 PUBLIC 0 2019-02-22 00:00:00 46 mbl_sickkids_2016 mbl hg19
Kidney Renal Clear Cell Carcinoma (BGI, Nat Genet 2012) ccRCC (BGI 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. TRUE 22138691 Guo et al. Nat Genet 2012 PUBLIC 0 2019-02-24 00:00:00 98 kirc_bgi ccrcc hg19
Hepatocellular Adenoma (INSERM, Cancer Cell 2014) Liad (Inserm 2014) Whole-exome sequencing of 46 liver tumor/normal pairs. TRUE 24735922 Pilati et al. Cancer Cell 2014 0 2019-03-07 00:00:00 46 liad_inserm_fr_2014 liad hg19
Bladder Urothelial Carcinoma (DFCI/MSKCC, Cancer Discov 2014) Bladder (DFCI/MSKCC 2014) Whole exome sequencing of tumor/normal samples from 50 patients treated with cisplatin-based chemotherapy for muscle invasive urothelial carcinoma. TRUE 25096233 Van Allen et al. Cancer Discov 2014 PUBLIC 0 2019-03-21 00:00:00 50 blca_dfarber_mskcc_2014 blca hg19
Renal Non-Clear Cell Carcinoma (Genentech, Nat Genet 2014) nccRCC (Genentech 2014) 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. TRUE 25401301 Durinck et al. Nat Genet 2014 0 2019-03-21 00:00:00 146 nccrcc_genentech_2014 nccrcc hg19
Diffuse Large B-Cell Lymphoma (Broad, PNAS 2012) DLBCL (Broad 2012) Whole exome sequencing of 58 primary DLBCL samples and their matched normals. TRUE 22343534 Lohr et al. PNAS 2012 0 2019-03-21 00:00:00 58 dlbc_broad_2012 dlbclnos hg19
MSS Mixed Solid Tumors (Broad/Dana-Farber, Nat Genet 2018) Mixed Tumor (DFCI) 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, head and neck cancer, and bladder cancer. TRUE 30150660 Miao et al. Nat Genet 2018 0 2019-03-21 00:00:00 249 mixed_allen_2018 mixed hg19
Intrahepatic Cholangiocarcinoma (JHU, Nat Genet 2013) Cholangiocarcinoma (JHU) Exome sequencing of tumor/normal pairs from 32 intrahepatic cholangiocarcinoma cases and 8 gall bladder carcinoma cases. TRUE 24185509 Jiao et al. Nat Genet 2013 PUBLIC 0 2019-03-23 00:00:00 40 chol_jhu_2013 chol hg19
Acinar Cell Carcinoma of the Pancreas (JHU, J Pathol 2014) PAAC (JHU) Whole exome sequencing of 23 surgically resected pancreatic carcinomas with acinar differentiation and their matched normals. TRUE 24293293 Jial et al. J Pathol 2014 PUBLIC 0 2019-03-26 00:00:00 23 paac_jhu_2014 paac hg19
Rhabdomyosarcoma (NIH, Cancer Discov 2014) RMS (NIH) Whole-genome or whole-exome sequencing of 43 rhabdomyosarcoma tumor/normal pairs. TRUE 24436047 Shern et al. Cancer Discov 2014 PUBLIC 0 2019-03-26 00:00:00 43 rms_nih_2014 rms hg19
Pancreatic Neuroendocrine Tumors (Multi-Institute, Nature 2017) ACRNET (Nature, 2017) Whole-genome sequencing of 98 pancreatic neuroendocrine tumours (PanNETs) and matched normal DNA pairs. TRUE 28199314 Scarpa et al. Nature 2017 PUBLIC 0 2019-03-26 00:00:00 98 panet_arcnet_2017 panet hg19
Primary Central Nervous System Lymphoma (Mayo Clinic, Clin Cancer Res 2015) PCNSL (Mayo Clinic) Exome sequencing of 19 immunocompetent primary central nervous system lymphoma (PCNSL) samples. TRUE 25991819 Braggio et al. Clin Cancer Res 2015 0 2019-03-26 00:00:00 19 pcnsl_mayo_2015 pcnsl hg19
Multiple Myeloma (Broad, Cancer Cell 2014) MM (Broad) Whole-exome or whole-genome sequencing of 203 multiple myeloma paired tumor/normal sample pairs. TRUE 24434212 Lohr et al. Cancer Cell 2014 0 2019-03-27 00:00:00 211 mm_broad pcm hg19
Neuroblastoma (Broad, Nat Genet 2013) NBL (Broad) Whole Genome and Whole Exome sequencing of 240 high-risk neuroblastoma tumor/normal pairs. TRUE 23334666 Pugh et al. Nat Genet 2013 0 2019-03-27 00:00:00 240 nbl_broad_2013 nbl hg19
Rhabdoid Cancer (BCGSC, Cancer Cell 2016) MRT (CELL 2016) Whole-genome sequencing of tumor-normal sample pairs from 40 patients with Malignant Rhabdoid Cancer. TRUE 26977886 E. Chun et al. Cancer Cell 2016 PUBLIC 0 2019-03-27 00:00:00 40 mrt_bcgsc_2016 mrt hg19
Gallbladder Carcinoma (Shanghai, Nat Genet 2014) GBC (Shanghai) Whole exome sequencing of 32 gallbladder carcinoma tumor/normal pairs. TRUE 24997986 Maolan Li et al. Nat Genet 2014 PUBLIC 0 2019-04-02 00:00:00 32 gbc_shanghai_2014 gbc hg19
Lung Adenocarcinoma (MSKCC, Science 2015) Lung adeno (MSKCC) Whole-exome sequencing of 34 non small cell lung cancer tumor/normal pairs. TRUE 25765070 Rizvi et al. Science 2015 0 2019-04-02 00:00:00 35 luad_mskcc_2015 luad hg19
Medulloblastoma (Broad, Nature 2012) MBL (Broad) Whole exome sequencing of 92 primary medulloblastoma tumor/normal pairs. TRUE 22820256 Pugh et al. Nature 2012 PUBLIC 0 2019-04-02 00:00:00 92 mbl_broad_2012 mbl hg19
Adenoid Cystic Carcinoma (JHU, Cancer Prev Res 2016) ACyC (JHU 2016) Whole-genome or whole-exome sequencing of 25 adenoid cystic carcinoma tumor/normal pairs. TRUE 26862087 Rettig et al, Cancer Prev Res 2016 ACYC;PUBLIC 0 2019-04-26 00:00:00 25 acyc_jhu_2016 acyc hg19
Chronic lymphocytic leukemia (ICGC, Nature Genetics 2011) CLLSLL (Nature Genetics 2011) Whole-exome sequencing of 105 Chronic Lymphocytic Leukemia samples. TRUE 22158541 Quesada et al. Nature Genetics 2011 PUBLIC 0 2019-05-01 00:00:00 105 cllsll_icgc_2011 cllsll hg19
Cutaneous Squamous Cell Carcinoma (DFCI, Clin Cancer Res 2015) CSCC (DFCI 2015) Targeted sequencing of 29 metastatic cutaneous squamous cell carcinoma samples. TRUE 25589618 Li et al. Clin Cancer Res 2015 PUBLIC 0 2019-05-02 00:00:00 29 cscc_dfarber_2015 cscc hg19
Desmoplastic Melanoma (Broad Institute, Nat Genet 2015) DESM (Broad 2015) Exome/Whole Genome sequencing of 20 desmoplastic melanoma tumor/normal pairs. TRUE 26343386 Shain et al. Nat Genet 2015 PUBLIC 0 2019-05-02 00:00:00 20 desm_broad_2015 desm hg19
Ewing Sarcoma (Institut Curie, Cancer Discov 2014) Ewing Sarcoma (Institut Curie) Whole-genome sequencing of 112 Ewing sarcoma samples and matched germ line DNA. TRUE 25223734 Tirode et al. Cancer Discov 2014 PUBLIC 0 2019-05-02 00:00:00 112 es_iocurie_2014 es hg19
Cutaneous Squamous Cell Carcinoma (MD Anderson, Clin Cancer Res 2014) cSCC (MD ANDERSON 2014) Whole-exome sequencing of tumor/normal pairs from 39 aggressive cutaneous squamous cell carcinoma cases. TRUE 25303977 Pickering et al. Clin Cancer Res 2014 0 2019-05-02 00:00:00 39 cscc_hgsc_bcm_2014 cscc hg19
Diffuse Large B cell Lymphoma (DFCI, Nat Med 2018) DLBCLNOS (DFCI) Whole-exome sequencing of tumor/matching normal sample pairs from 135 DLBCL patients. TRUE 29713087 Chapuy et al. Nat Med 2018 PUBLIC 0 2019-05-02 00:00:00 135 dlbcl_dfci_2018 dlbclnos hg19
Liver Hepatocellular Adenoma and Carcinomas (MSK, PLOS One 2018) HCC (MSK, PLOS One) Targeted sequencing of tumor/normal pairs of 9 LIAD and 10 HCC patients via MSK-IMPACT platform. TRUE 30052636 Zheng et al. PLOS One 2018 PUBLIC 0 2019-05-03 00:00:00 19 hcc_msk_venturaa_2018 hcc hg19
Gallbladder Cancer (MSK, Cancer 2018) GBC (MSK CANCER 2018) Targeted Sequencing of 103 samples with matched normals from 101 Gallbladder cancer patients. TRUE 30427539 Raja et al, Cancer 2018 PUBLIC 0 2019-05-03 00:00:00 103 gbc_msk_2018 gbc hg19
Liver Hepatocellular Carcinoma (AMC, Hepatology 2014) Liver (AMC) Whole exome sequencing of 231 hepatocellular carcinomas and matched normal tissue pairs. TRUE 24798001 Ahn et al. Hepatology 2014 PUBLIC 0 2019-05-06 00:00:00 231 lihc_amc_prv hcc hg19
Lung Adenocarcinoma (TSP, Nature 2008) Lung adeno (TSP) Targeted sequencing of 163 lung adenocarcinoma tumor/normal pairs. Generated by WashU/Broad. TRUE 18948947 Ding et al. Nature 2008 PUBLIC 0 2019-05-06 00:00:00 163 luad_tsp luad hg19
Medulloblastoma (PCGP, Nature 2012) MBL (PCGP) 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. TRUE 22722829 Robinson et al. Nature 2012 PUBLIC 0 2019-05-06 00:00:00 37 mbl_pcgp mbl hg19
Pancreatic Adenocarcinoma (ICGC, Nature 2012) Pancreas (ICGC) Whole-exome sequencing of 99 pancreatic samples and their matched normals. TRUE 23103869 Biankin et al. Nature 2012 0 2019-05-07 00:00:00 99 paad_icgc paad hg19
MSK-IMPACT Clinical Sequencing Cohort (MSKCC, Nat Med 2017) MSK-IMPACT Targeted sequencing of 10,000 clinical cases using the MSK-IMPACT assay TRUE 28481359 Zehir et al. Nat Med 2017 PUBLIC 0 2019-05-07 00:00:00 10945 msk_impact_2017 mixed hg19
Pancreatic Cancer (UTSW, Nat Commun 2015) Pancreas (UTSW) Whole exome sequencing of 109 micro-dissected pancreatic cancer cases and normal control tissue. TRUE 25855536 Witkiewicz et al. Nat Commun 2015 PUBLIC 0 2019-05-09 00:00:00 109 paad_utsw_2015 paad hg19
Pancreatic Neuroendocrine Tumors (Johns Hopkins University, Science 2011) PANET(Johns Hopkins 2011) Whole exome sequencing of 10 pancreatic neuroendocrine tumor patients. TRUE 21252315 Jiao et al. Science 2011 PUBLIC 0 2019-05-09 00:00:00 10 panet_jhu_2011 panet hg19
Small Cell Lung Cancer (CLCGP, Nat Genet 2012) Small Cell Lung (CLCGP) Comprehensive whole exam profiling of 29 small cell lung cancer samples. Generated by the Clinical Lung Cancer Genome Project. TRUE 22941188 Peifer et al. Nat Genet 2012 SCLCPORTAL;PUBLIC 0 2019-05-10 00:00:00 29 sclc_clcgp sclc hg19
Uterine Clear Cell Carcinoma (NIH, Cancer 2017) UCCC (NIH) Whole exome sequencing of paired tumor-normal DNAs from 16 cases of clear cell endometrial tumors. TRUE 28485815 Le Gallo et al. Cancer 2017 PUBLIC 0 2019-05-14 00:00:00 16 uccc_nih_2017 uccc hg19
Non-Small Cell Lung Cancer (University of Turin, Lung Cancer 2017) UNITO (Lung Cancer, 2016) Targeted next-generation sequencing of 41 NSCLC samples. TRUE 27346245 Vavalà et al. Lung Cancer 2017 PUBLIC 0 2019-05-15 00:00:00 41 nsclc_unito_2016 nsclc hg19
Malignant Peripheral Nerve Sheath Tumor (MSKCC, Nat Genet 2014) MPNST (MSKCC) Whole exome sequencing of 15 malignant peripheral nerve sheath tumor/normal pairs. TRUE 25240281 Lee et al. Nat Genet 2014 PUBLIC 0 2019-05-16 00:00:00 15 mpnst_mskcc mpnst hg19
TMB and Immunotherapy (MSKCC, Nat Genet 2019) TMB (MSKCC 2019) Genomic and survival data from 1661 tumor-normal pairs from 1661 patients with various cancer types sequenced with the MSK-IMPACT assay. TRUE 30643254 Samstein et al. Nat Genet 2019 0 2019-05-16 00:00:00 1661 tmb_mskcc_2018 mixed hg19
Merged Cohort of LGG and GBM (TCGA, Cell 2016) LGG-GBM (TCGA 2016) Whole-exome sequencing from 1,122 TCGA LGG and GBM cases. TRUE 26824661 TCGA, Cell 2016 PUBLIC 0 2019-06-10 00:00:00 1102 lgggbm_tcga_pub difg hg19
Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytoma (MSKCC, Neuro Oncol 2017) Glioma MSK (Neuro Oncol 2017) Genomic characterization using next generation sequencing (NGS) in 22 Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytomas. TRUE 28472509 Thomas et al. Neuro Oncol 2017 PUBLIC 0 2019-06-11 00:00:00 22 odg_msk_2017 odg hg19
Germ Cell Tumors (MSKCC, J Clin Oncol 2016) GCT (JCO, 2016) Whole-exome and Targeted sequencing of 19 samples and Targeted sequencing of 161 samples from 180 Germ Cell Tumor patients. TRUE 27646943 Bagrodia et al. J Clin Oncol 2016 PUBLIC 0 2019-06-11 00:00:00 180 gct_msk_2016 testis hg19
Colon Adenocarcinoma (CaseCCC, PNAS 2015) COAD (CaseCCC) Whole-exome sequencing of tumor/normal pairs from 29 African American Colon Cancers. TRUE 25583493 Guda et al. PNAS 2015 PUBLIC 0 2019-07-02 00:00:00 29 coad_caseccc_2015 coad hg19
Myeloproliferative Neoplasms (CIMR, NEJM 2013) MPN (CIMR) Whole exome sequencing of paired tumor/normal pairs from 151 cases of Myeloproliferative Neoplasms. TRUE 24325359 Nangalia et al. NEJM 2013 PUBLIC 0 2019-07-24 00:00:00 151 mpn_cimr_2013 mpn hg19
Clear Cell Renal Cell Carcinoma (DFCI, Science 2019) ccRCC (DFCI 2019) Whole-exome sequencing of metastatic clear cell renal carcinoma (ccRCC) from 35 tumor/normal pairs. TRUE 29301960 Miao et al. Science 2019 PUBLIC 0 2019-07-26 00:00:00 35 ccrcc_dfci_2019 ccrcc hg19
Non-Small Cell Lung Cancer (MSKCC, J Clin Oncol 2018) NSCLC (MSK PD1) IMPACT sequencing of 240 NSCLC tumor/normal pairs treated at MSKCC with anti-PD-(L)1 based therapy. TRUE 29337640 Rizvi et al. J Clin Oncol 2018 PUBLIC 0 2019-10-03 00:00:00 240 nsclc_pd1_msk_2018 nsclc hg19
Unclassified Renal Cell Carcinoma (MSK, Nature 2016) Renal unclass (MSKCC) Targeted sequencing of 62 high-grade primary Unclassified Renal Cell Carcinoma tumor samples with matched normals. TRUE 27713405 Chen et al. Nat Commun 2016 PUBLIC 0 2019-10-09 00:00:00 62 urcc_mskcc_2016 urcc hg19
Cholangiocarcinoma (MSK, Clin Cancer Res 2018) CHOL (MSK 2018) Targeted sequencing (MSK-IMPACT) of 195 tumor samples (194 with matched normals) from 192 cholangiocarcinoma patients. TRUE 29848569 Lowery et al. Clin Cancer Res 2018 0 2019-10-09 00:00:00 195 chol_msk_2018 chol hg19
Colorectal Adenocarcinoma (Genentech, Nature 2012) Colorectal (Genentech) Whole-genome sequencing of 74 paired colon tumor-normal samples. TRUE 22895193 Seshagiri et al. Nature 2012 PUBLIC 0 2019-12-29 00:00:00 74 coadread_genentech coadread hg19
Colorectal Adenocarcinoma Triplets (MSKCC, Genome Biol 2014) Colorectal (MSKCC) Targeted sequencing of primary, metastatic, and normal tissues from 69 colorectal adenocarcinoma patients. TRUE 25164765 Brannon et al. Genome Biol 2014 PUBLIC 0 2019-12-30 00:00:00 138 coadread_mskcc coadread hg19
Hepatocellular Carcinoma (MSK, Clin Cancer Res 2018) HCC (MSK 2018) MSK-IMPACT sequencing of 127 Hepatocellular Carcinoma tumor samples with matched normals. TRUE 30373752 Harding et al. Clin Cancer Res 2018 0 2019-12-30 00:00:00 127 hcc_mskimpact_2018 hcc hg19
Chronic Lymphocytic Leukemia (Broad, Cell 2013) CLL (Broad 2013) Whole-exome sequencing of 160 CLL tumor/normal pairs. TRUE 23415222 Landau et al. Cell 2013 0 2020-01-28 00:00:00 160 lcll_broad_2013 cllsll hg19
Lymphoma Cell Lines (MSKCC, 2020) Lymph Cellline (MSKCC, 2020) Targeted sequencing of 34 lymphoma cell lines using HemePACT_v3 TRUE NA NA PUBLIC 0 2020-02-12 00:00:00 34 lymphoma_cellline_msk_2020 lymph hg19
Lung Adenocarcinoma (Broad, Cell 2012) Lung adeno (Broad) Whole-exome and/or whole-genome sequencing of 183 lung adenocarcinomas and matched normal tissue pairs. TRUE 22980975 Imielinksi et al. Cell 2012 PUBLIC 0 2020-02-26 00:00:00 183 luad_broad luad hg19
Mixed cfDNA (MSK, Nature Medicine 2019) Mixed cfDNA (MSK 2019) Targeted sequencing of 248 samples from 124 patients’ cfDNA/WBC and tumor/normal pairs. TRUE 31768066 Razavi et al. Nature Medicine 2019 0 2020-03-25 00:00:00 248 cfdna_msk_2019 mixed hg19
Glioma (MSKCC, Clin Cancer Res 2019) Glioma (MSK 2019) Targeted sequencing on MSK-IMPACT and FMI Panels of 1004 samples (837 with matched normals) from 923 glioma patients. TRUE 31263031 Jonsson et al. Clin Cancer Res 2019 PUBLIC 0 2020-03-25 00:00:00 1004 glioma_mskcc_2019 difg hg19
Glioblastoma (Columbia, Nat Med. 2019) GBM (Columbia) Whole-exome sequencing of 32 out of 42 glioblastomas patients with matched normals. TRUE 30742119 Zhao et al. Nat Med 2019 0 2020-05-08 00:00:00 42 gbm_columbia_2019 gbm hg19
Recurrent and Metastatic Head & Neck Cancer (MSKCC, JAMA Oncol 2016) HNC (MSKCC 2016) Targeted sequencing of 151 patients with advanced, treatment resistant head and neck tumors TRUE 27442865 Morris et al. JAMA Oncol 2016 0 2020-06-05 00:00:00 151 hnc_mskcc_2016 head_neck hg19
Pediatric Ewing Sarcoma (DFCI, Cancer Discov 2014) Ewing Sarcoma (DFCI) Whole exome sequencing of 96 pediatric Ewing Sarcoma tumors and 11 cell lines. TRUE 25186949 Crompton et al. Cancer Discov 2014 PUBLIC 0 2020-06-17 00:00:00 107 es_dfarber_broad_2014 es hg19
Small-Cell Lung Cancer (Multi-Institute, Cancer Cell 2017) SCLC (GARDNER 2017) Whole Exome Sequencing of 10 paired chemosensitive and chemoresistant SCLC PDX. TRUE 28196596 Gardner et al. Cancer Cell 2017 0 2020-06-17 00:00:00 20 sclc_cancercell_gardner_2017 sclc hg19
Basal Cell Carcinoma (UNIGE, Nat Genet 2016) BCC (UNIGE 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. TRUE 26950094 Bonilla et al. Nat Genet 2016 PUBLIC 0 2020-06-22 00:00:00 293 bcc_unige_2016 bcc hg19
Esophageal Squamous Cell Carcinoma (ICGC, Nature 2014) Esophagus sq (ICGC) Whole-genome or whole-exome sequencing of 88 esophageal squamous cell carcinoma tumor/normal pairs. TRUE 24670651 Song et al. Nature 2014 PUBLIC 0 2020-06-22 00:00:00 88 escc_icgc escc hg19
Metastatic Melanoma (MSKCC, JCO Precis Oncol 2017) SKCM (Vanderbilt/Mskcc) Targeted sequencing of pre-treatment 66 Melanoma tumor samples. PubMed TRUE NA Catalanotti et al. JCO Precis Oncol 2017 PUBLIC 0 2020-06-22 00:00:00 66 skcm_vanderbilt_mskcc_2015 skcm hg19
Glioma (MSK, Nature 2019) DIFG(MSK 2018) Targeted Sequencing of CSF samples (91 samples with 86 matched normals) from 42 glioma patients. TRUE 30675060 Miller et al. Nature 2019 PUBLIC 0 2020-06-22 00:00:00 91 glioma_msk_2018 difg hg19
Prostate Adenocarcinoma (MSK, Eur Urol 2020) PRAD (MSKCC, 2020) Targeted sequencing of 1465 prostate adenocarcinoma tumor/normal pairs via MSK-IMPACT. TRUE 32317181 Nguyen et al. Eur Urol 2020 0 2020-06-22 00:00:00 1465 prad_cdk12_mskcc_2020 prad hg19
The Metastatic Prostate Cancer Project (Provisional, November 2019) The MPC Project 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 report data (PATH). As these data were generated in a research, not a clinical, laboratory, they are for research purposes only and cannot be used to inform clinical decision-making. All annotations have been de-identified. More information is available at www.mpcproject.org. For questions about these data, including how to cite, please visit www.mpcproject.org/data-release or direct questions to . TRUE NA NA 0 2020-06-25 00:00:00 75 prad_mpcproject_2018 prad hg19
Upper Tract Urothelial Carcinoma (Cornell/Baylor/MDACC, Nat Commun 2019) UTUC (Cornell/Baylor/MDACC 2019) Whole exome sequencing (37 samples) and RNA-seq analysis (32 samples) of 47 upper tract urothelial carcinoma patients. TRUE 31278255 Robinson et al. Nat Commun 2019 PUBLIC 0 2020-06-25 00:00:00 47 utuc_cornell_baylor_mdacc_2019 utuc hg19
Pediatric Preclinical Testing Consortium (CHOP, Cell Rep 2019) PPTC (2019) Whole-exome sequencing of 261 patient derived xenografts (PDXs) samples from high-risk childhood cancers (with no matched normals). Website: PPTC TRUE 31693904 Rotika et al. Cell Rep 2019 PUBLIC 0 2020-06-25 00:00:00 261 pptc_2019 mixed hg19
Uterine Sarcoma/Mesenchymal (MSK, Clin Cancer Res 2020) USARC (MSK, 2020) Targeted Sequencing of 108 Uterine Sarcoma/Mesenchymal tumor/normal pairs from 107 patients. TRUE 32299819 Hensley et al. Clin Cancer Res 2020 DONOGHUM;CHAVANS;PUBLIC 0 2020-06-25 00:00:00 108 usarc_msk_2020 usarc hg19
Stomach Adenocarcinoma (TCGA, Nature 2014) Stomach (TCGA pub) Whole-exome sequencing of 295 primary gastric adenocarcinomas tumors with matched normals. TCGA Stomach Adenocarcinoma Project; raw data at the NCI. TRUE 25079317 TCGA, Nature 2014 PUBLIC 0 2020-06-29 00:00:00 295 stad_tcga_pub stad hg19
Acral Melanoma (TGEN, Genome Res 2017) TSAM Whole exome sequencing and transcriptome analysis of 34 Acral Melanoma patients (33 with matched normals). TRUE 28373299 Liang et al. Genome Res 2017 PUBLIC 0 2020-06-29 00:00:00 38 mel_tsam_liang_2017 mel hg19
Mature B-cell malignancies (MD Anderson Cancer Center) MBN (MDACC 2013) 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 TRUE NA NA 0 2020-06-29 00:00:00 760 mbn_mdacc_2013 mbn hg19
Prostate Adenocarcinoma (SMMU, Eur Urol 2017) Prostate (Eur Urol 2017) Whole-genome and transcriptome sequencing of 65 Prostate Adenocarcinoma tumor/normal pairs. TRUE 28927585 Shancheng et al. Eur Urol 2017 0 2020-06-30 00:00:00 65 prad_eururol_2017 prad hg19
Cutaneous T Cell Lymphoma (Columbia U, Nat Genet 2015) CTCL (Columbia 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). TRUE 26551667 Da Silva Almeida et al. Nat Genet 2015 0 2020-07-01 00:00:00 43 ctcl_columbia_2015 nhl hg19
Mantle Cell Lymphoma (IDIBIPS, PNAS 2013) MCL (IDIBIPS 2013) Whole exome sequencing of 29 primary mantle cell lymphomas and their matched normals. TRUE 24145436 Beà et al. PNAS 2013 0 2020-07-07 00:00:00 29 mcl_idibips_2013 mcl hg19
Cystic Tumor of the Pancreas (Johns Hopkins, PNAS 2011) Pancreas (JHU 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 neoplasms (SPNs). TRUE 22158988 Wu et al. PNAS 2011 PUBLIC 0 2020-07-07 00:00:00 32 pact_jhu_2011 pact hg19
Non-Small Cell Lung Cancer (TRACERx, NEJM & Nature 2017) NSCLC (TRACERx 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. TRUE 28445112,28445469 Hanjani et al. NEJM 2017, Abbosh et al. Nature 2017 PUBLIC 0 2020-07-15 00:00:00 447 nsclc_tracerx_2017 nsclc hg19
Esophageal Adenocarcinoma (DFCI, Nat Genet 2013) Esophagus (Broad) Whole-exome sequencing of 149 tumor/normal pairs and whole-genome sequencing of 16 pairs from 149 esophageal adenocarcinoma patients. TRUE 23525077 Dulak et al. Nat Genet 2013 0 2020-07-18 00:00:00 151 esca_broad esca hg19
Myelodysplastic (MSKCC, 2020) MDS (MSKCC) Single-cell genomics reveals the genetic and molecular bases for escape from mutational epistasis in myeloid neoplasms TRUE 27276561,30333627,24030381 Papaemmanuil et al. NEJM 2016; Tyner et al. Nature 2018; Papaemmanuil et al. Blood 2013 PENSONA;OMARHISTCOBI 0 2020-07-18 00:00:00 4231 mds_mskcc_2020 mds hg19
Head and Neck Squamous Cell Carcinoma (Johns Hopkins, Science 2011) Head & neck (JHU) Exome sequencing of 32 head and neck squamous cell carcinoma tumor/normal sample pairs. TRUE 21798897 Agrawal et al. Science 2011 PUBLIC 0 2020-07-28 00:00:00 32 hnsc_jhu hnsc hg19
Non-Hodgkin Lymphoma (BCGSC, Nature 2011) NHL (bcgsc 2011) Whole genome or whole exome sequencing of 14 NHL tumors and their matched normals. TRUE 21796119 Morin et al. Nature 2011 0 2020-07-28 00:00:00 14 nhl_bcgsc_2011 nhl hg19
Diffuse Large B-cell Lymphoma (BCGSC, Blood 2013) NHL (BCGSC 2013) Whole genome sequencing of 40 DLBCL tumor/normal pairs and 13 cell lines. TRUE 23699601 Morin et al. Blood 2013 0 2020-08-05 00:00:00 53 nhl_bcgsc_2013 nhl hg19
Chronic Lymphocytic Leukemia (IUOPA, Nature 2015) CLL(IUOPA 2015) Mutation data from whole-genome or whole-exome sequencing of 428 CLL, 54 MBL, and 24 SLL tumor/normal pairs. TRUE 26200345 Puente et al. Nature 2015 0 2020-08-15 00:00:00 506 cll_iuopa_2015 cllsll hg19
Metastatic Prostate Adenocarcinoma (MCTP, Nature 2012) Prostate (MICH) 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. TRUE 22722839 Grasso et al. Nature 2012 PUBLIC 0 2020-08-18 00:00:00 61 prad_mich prad hg19
Pan-Lung Cancer (TCGA, Nat Genet 2016) NSCLC (TCGA 2016) Whole-exome sequencing of 660 lung ADC and 484 lung SqCC tumor/normal pairs. TRUE 27158780 TCGA, Nat Genet 2016 0 2020-08-20 00:00:00 1144 nsclc_tcga_broad_2016 nsclc hg19
Thyroid Carcinoma (TCGA, Firehose Legacy) Thyroid (TCGA) TCGA Thyroid Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-08-28 00:00:00 516 thca_tcga thpa hg19
Uveal Melanoma (TCGA, Firehose Legacy) Uveal melanoma (TCGA) TCGA Uveal Melanoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-08-28 00:00:00 80 uvm_tcga um hg19
Skin Cutaneous Melanoma (Yale, Nat Genet 2012) Melanoma (Yale 2012) Exome sequencing of 147 melanoma samples with 99 matched normals. TRUE 22842228 Krauthammer et al. Nat Genet 2012 PUBLIC 0 2020-09-02 00:00:00 147 skcm_yale skcm hg19
Prostate Adenocarcinoma (Broad/Cornell, Cell 2013) Prostate (Broad/Cornell 2013) Whole genome sequencing of 57 prostate tumor and matches normal tissues. TRUE 23622249 Baca et al. Cell 2013 PUBLIC 0 2020-09-23 00:00:00 57 prad_broad_2013 prad hg19
Breast Fibroepithelial Tumors (Duke-NUS, Nat Genet 2015) BFN (Duke-NUS) Whole exome sequencing of 22 phyllodes tumors TRUE 26437033 Tan et al. Nat Genet 2015 PUBLIC 0 2020-09-23 00:00:00 22 bfn_duke_nus_2015 bfn hg19
Retinoblastoma cfDNA (MSKCC 2020) RBL (MSKCC) Cell-free DNA profiling in 14 retinoblastoma patients with advanced intraocular disease: An MSKCC experience TRUE NA NA TSUIW 0 2020-09-24 00:00:00 14 rbl_cfdna_msk_2020 rbl hg19
Prostate Adenocarcinoma (MSKCC, PNAS 2014) Prostate (MSKCC 2014) Genome-wide copy number profiling in 104 primary prostate cancer tumor/normal pairs. Raw data via GEO (GSE54691). TRUE 25024180 Hieronymus et al. PNAS 2014 PUBLIC 0 2020-09-25 00:00:00 104 prad_mskcc_2014 prad hg19
Prostate Adenocarcinoma Organoids (MSKCC, Cell 2014) Prostate Organoids Exome sequencing of 12 advanced prostate cancer samples and matched organoids TRUE 25201530 Gao et al. Cell 2014 PUBLIC 0 2020-09-25 00:00:00 12 prad_mskcc_cheny1_organoids_2014 prad hg19
Esophageal Squamous Cell Carcinoma (UCLA, Nat Genet 2014) ESCC (UCLA 2014) Whole exome sequencing (WXS) or targeted deep sequencing (TDS) of 139 paired esophageal squamous cell carcinoma patients. TRUE 24686850 Lin et al. Nat Genet 2014 PUBLIC 0 2020-10-06 00:00:00 139 escc_ucla_2014 escc hg19
The Angiosarcoma Project (Provisional, July 2020) The Angiosarcoma Project 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 patients subjected to WES (along with matched germline WES). This study includes genomic data, patient-reported data (pre-pended as PRD), medical record data (MedR), and pathology report data (PATH). As these data were generated in a research laboratory, not a clinical laboratory, they are for research purposes only and cannot be used to inform clinical decision-making. For questions about these data, including how to cite, please visit www.ascproject.org/data-release or direct questions to . TRUE NA NA PUBLIC 0 2020-10-14 00:00:00 83 angs_painter_2020 angs hg19
Colorectal Adenocarcinoma (DFCI, Cell Reports 2016) Colorectal (DFCI 2016) Whole-exome sequencing of 619 colorectal cancers with clinicopathologic annotations. TRUE 27149842 Giannakis et al. Cell Reports 2016 PUBLIC 0 2020-10-15 00:00:00 619 coadread_dfci_2016 coadread hg19
Acute myeloid leukemia or myelodysplastic syndromes (WashU, 2016) AML/MDS (WashU, 2016) Enhanced exome or targeted sequencing of 116 acute myeloid leukemia (AML) or myelodysplastic syndromes (MDS) patients’ tumor/normal pairs . TRUE 27959731 Welch et al. N Engl J Med. 2016 0 2020-10-15 00:00:00 136 mnm_washu_2016 mnm hg19
Small Cell Carcinoma of the Ovary (MSKCC, Nat Genet 2014) Ovary SC (MSKCC) Targeted sequencing of 12 SCCO paired tumor and normal samples. TRUE 24658004 Jelinic et al. Nat Genet 2014 PUBLIC 0 2020-10-16 00:00:00 12 scco_mskcc scco hg19
Squamous Cell Carcinoma of the Vulva (CUK, Exp Mol Med 2018) VSC (CUK) Whole exome sequencing of tumor/normal pairs from 15 vulvar squamous cell carcinomas. TRUE 29422544 Han et al. Exp Mol Med 2018 PUBLIC 0 2020-10-16 00:00:00 15 vsc_cuk_2018 vsc hg19
Breast Cancer (SMC 2018) BRCA (SMC) Whole-exome sequencing of 187 primary tumors from a Korean breast cancer cohort (SMC). TRUE 29713003 Kan et al. Nature Communications 2018 0 2020-10-16 00:00:00 187 brca_smc_2018 brca hg19
Histiocytosis Cobimetinib (MSK, Nature 2019) HIST (COBI 2019) Targeted and whole exome sequencing of 52 histiocytosis tumor/normal pairs. TRUE 30867592 Eli et al. Nature 2019 DIAMONDHISTCOBI;PUBLIC;HYMANHISTCOBI;OMARHISTCOBI 0 2020-10-21 00:00:00 52 histiocytosis_cobi_msk_2019 hdcn hg19
Melanomas (TCGA, Cell 2015) Mel (TCGA pub) Whole-exome sequencing of 333 primary and/or metastatic melanomas. TRUE 26091043 TCGA, Cell 2015 PUBLIC 0 2020-10-27 00:00:00 359 skcm_tcga_pub_2015 skcm hg19
Non-Small Cell Lung Cancer (MSK, Cancer Cell 2018) NSCLC (MSKCC 2018) Whole-exome sequencing of 75 tumor/normal NSCLC pairs treated with PD-1 plus CTLA-4 blockade.. TRUE 29657128 Hellmann et al. Cancer Cell 2018 0 2020-10-27 00:00:00 75 nsclc_mskcc_2018 nsclc hg19
Germ Cell Tumors and Shared Leukemias (MSK, 2020) GCT(MSK 2020) Targeted and WES sequencing of germ cell tumor and shared leukemia samples. TRUE NA NA JTMED11;DONOGHUM;PUBLIC;ABDELWAO2 0 2020-10-27 00:00:00 21 gct_msk_2020 testis hg19
Esophageal Carcinoma (TCGA, Nature 2017) Stomach/Esophageal (TCGA) Whole exome sequencing of 559 esophageal and gastric carcinoma tumors with matched normals. TRUE 28052061 TCGA, Nature 2017 0 2020-10-28 00:00:00 559 stes_tcga_pub egc hg19
Pediatric Pan-cancer (Columbia U, Genome Med 2016) pediatric-cancers Whole exome sequencing of 103 samples (88 with matched normals) from 88 high-risk pediatric cancer patients. TRUE 28007021 Oberg et al. Genome Med 2016 PUBLIC 0 2020-10-28 00:00:00 103 mixed_pipseq_2017 mixed hg19
Metastatic Prostate Adenocarcinoma (SU2C/PCF Dream Team, PNAS 2019) Prostate (SU2C 2019) Whole exome sequencing of 444 castrate resistant prostate cancer tumor/normal pairs. SU2C-PCF Dream Team: Precision Therapy for Advanced Prostate Cancer. TRUE 31061129 Abida et al. PNAS 2019 0 2020-10-28 00:00:00 444 prad_su2c_2019 prad hg19
Metastatic Solid Cancers (UMich, Nature 2017) MET500 (Michigan U 2017) Whole-exome and -transcriptome sequencing of 500 adult patients with metastatic solid tumor/primary normal pairs of diverse lineage and biopsy site. TRUE 28783718 Robinson et al. Nature 2017 0 2020-10-28 00:00:00 500 metastatic_solid_tumors_mich_2017 mixed hg19
Colon Cancer (CPTAC-2 Prospective, Cell 2019) COAD (CPTAC-2 2019) Whole Exome Sequencing of 110 colon adenocarcinoma tumor samples. TRUE 31031003 Vasaikar et al. Cell 2019 0 2020-10-28 00:00:00 110 coad_cptac_2019 coad hg19
Tumors with TRK fusions (MSK, Clin Cancer Res 2020) NTRK (MSKCC 2019) Tumors with TRK fusions based on MSK-IMPACT targeted sequencing. TRUE 31871300 Rosen et al. Clin Cancer Res 2020 0 2020-10-28 00:00:00 106 ntrk_msk_2019 mixed hg19
Cancer Therapy and Clonal Hematopoiesis (MSK, Nat Genet 2020) CH (MSK, 2020) Clonal hematopoiesis mutations identified in blood samples from 24,146 patients whose tumor-blood pairs were analyzed using MSK-IMPACT. TRUE 33106634 Kelly et al. Nat Genet 2020 PUBLIC 0 2020-10-28 00:00:00 24146 msk_ch_2020 mixed hg19
Liver Hepatocellular Carcinoma (TCGA, Firehose Legacy) Liver (TCGA) TCGA Liver Hepatocellular Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-11-12 00:00:00 442 lihc_tcga hcc hg19
Low-Grade Gliomas (UCSF, Science 2014) Glioma (UCSF) Whole exome sequencing of 23 grade II glioma tumor/normal pairs. TRUE 24336570 Johnson et al. Science 2014 PUBLIC 0 2020-11-12 00:00:00 61 lgg_ucsf_2014 difg hg19
Head and Neck Squamous Cell Carcinoma (Broad, Science 2011) Head & neck (Broad) Whole-exome sequencing of 74 head and neck squamous cell carcinoma tumor/normal pairs. TRUE 21798893 Stransky et al. Science 2011 PUBLIC 0 2020-11-12 00:00:00 74 hnsc_broad hnsc hg19
Bladder Urothelial Carcinoma (BGI, Nat Genet 2013) Bladder (BGI 2013) Whole-exome and whole-genome sequencing of 99 bladder cancer tumor/normal pairs. Generated by BGI. TRUE 24121792 Guo et al. Nat Genet 2013 PUBLIC 0 2020-11-12 00:00:00 99 blca_bgi blca hg19
Non-small cell lung cancer (MSK, Science 2015) NSCLC (MSKCC) Whole-exome sequencing of tumor-normal tissue pairs from 16 non-small cell lung cancer samples. TRUE 25765070 Rivzi et al. Science 2016 PUBLIC 0 2020-11-12 00:00:00 16 nsclc_mskcc_2015 nsclc hg19
Small Cell Lung Cancer (Johns Hopkins, Nat Genet 2012) Small Cell Lung (JHU) 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 tumors and 23 SCLC cell lines without matched normal controls. TRUE 22941189 Rudin et al. Nat Genet 2012 SCLCPORTAL;PUBLIC 0 2020-11-14 00:00:00 80 sclc_jhu sclc hg19
Poorly-Differentiated and Anaplastic Thyroid Cancers (MSKCC, JCI 2016) Thyroid (MSKCC 2016) Targeted sequencing of 341 cancer genes from 117 patient-derived PDTCs and ATCs TRUE 26878173 Landa et al. J Clin Invest 2016 PUBLIC 0 2020-11-14 00:00:00 117 thyroid_mskcc_2016 thyroid hg19
Pancreatic Adenocarcinoma (QCMG, Nature 2016) Pancreas (QCMG 2016) Whole-genome and deep-exome sequencing analysis of 456 pancreatic ductal adenocarcinomas TRUE 26909576 Bailey et al. Nature 2016 PUBLIC 0 2020-11-14 00:00:00 456 paad_qcmg_uq_2016 paad hg19
Pediatric Pan-Cancer (DKFZ, Nature 2017) Pediatric Pan-Cancer (DKFZ-2017) Whole-genome/exome sequencing of 961 Pediatric Cancer samples. Data generated from Pfister Lab & DKFZ/German Cancer Consortium. TRUE 29489754 Grobner et al. Nature 2018 PUBLIC 0 2020-11-14 00:00:00 961 pediatric_dkfz_2017 mixed hg19
Prostate Cancer (MSK, Cell Metab 2020) PROSTATE (MSK 2019) MSK-IMPACT Sequencing of 18 prostate cancer tumor/normal pairs. TRUE 31564440 Granlund et al. Cell Metab 2020 PUBLIC 0 2020-11-14 00:00:00 18 prad_msk_2019 prostate hg19
Prostate Adenocarcinoma (CPC-GENE, Nature 2017) PRAD Hallmarks (CPCG-GENE, 2017) Whole-genome/exome sequencing of 477 prostate samples from CPC-GENE and public data sets, including TCGA-PRAD. TRUE 28068672 Fraser et al. Nature 2017 0 2020-11-18 00:00:00 477 prad_cpcg_2017 prad hg19
Intrahepatic Cholangiocarcinoma (Shanghai, Nat Commun 2014) IHCH (Shanghai) Whole exome sequencing of 103 tumor/normal sample pairs in 103 intrahepatic cholangiocarcinoma patients. TRUE 25526346 Shanshan et al. Nat Commun 2014 PUBLIC 0 2020-11-18 00:00:00 103 ihch_smmu_2014 ihch hg19
Breast Invasive Carcinoma (Sanger, Nature 2012) Breast (Sanger) Whole exome sequencing from 100 breast cancer tumor/normal sample pairs. Generated by the Sanger Institute. TRUE 22722201 Stephens et al. Nature 2012 PUBLIC 0 2020-11-20 00:00:00 100 brca_sanger brca hg19
Juvenile Papillomatosis and Breast Cancer (MSK, 2020) Juvenile papillomatosis (MSK, 2020) Whole-exome sequencing analysis of juvenile papillomatosis and coexisting breast carcinoma. TRUE NA NA PUBLIC 0 2020-11-26 00:00:00 5 brca_jup_msk_2020 brca hg19
Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2015) ALL (St. Jude 2015) Comprehensive profiling of infant MLL-rearranged acute lymphoblastic leukemia (MLL-R ALL) TRUE 25730765 Andersson et al. Nat Genet 2015 PUBLIC 0 2020-11-29 00:00:00 93 all_stjude_2015 bll hg19
Ampullary Carcinoma (Baylor College of Medicine, Cell Reports 2016) Ampullary Carcinoma (BCM 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 be clearly defined morphologically (AMPCA). TRUE 26804919 Gingras et al. Cell Rep 2016 PUBLIC 0 2020-11-29 00:00:00 160 ampca_bcm_2016 ampca hg19
Hypodiploid Acute Lymphoid Leukemia (St Jude, Nat Genet 2013) ALL (St. Jude 2013) Whole genome or exome sequencing of 44 (20 whole genome, 20 exome) ALL tumor/normal pairs. TRUE 23334668 Holmfeldt et al. Nat Genet 2013 0 2020-11-29 00:00:00 44 all_stjude_2013 myeloid hg19
Adenoid Cystic Carcinoma of the Breast (MSKCC, J Pathol. 2015) ACBC (MSKCC/Breast 2015) Whole exome sequencing of 12 breast AdCCs. TRUE 26095796 Martelotto et al. J Pathol 2015 ACYC;PUBLIC 0 2020-11-29 00:00:00 12 acbc_mskcc_2015 acbc hg19
Adenoid Cystic Carcinoma (MSKCC, Nat Genet 2013) ACyC (MSKCC, 2013) Whole-exome or whole-genome sequencing analysis of 60 ACC tumor/normal pairs TRUE 23685749 Ho et al. Nat Genet 2013 ACYC;PUBLIC 0 2020-11-29 00:00:00 60 acyc_mskcc_2013 acyc hg19
Adenoid Cystic Carcinoma (FMI, Am J Surg Pathl. 2014) ACyC (FMI 2014) Targeted Sequencing of 28 metastatic Adenoid Cystic Carcinoma samples. TRUE 24418857 Ross et al. Am J Surg Pathl 2014 ACYC;PUBLIC 0 2020-11-29 00:00:00 28 acyc_fmi_2014 acyc hg19
Adenoid Cystic Carcinoma (MDA, Clin Cancer Res 2015) ACyC (MDA 2015) WGS of 21 salivary ACCs and targeted molecular analyses of a validation set (81 patients). TRUE 26631609 Mitani et al. Clin Cancer Res 2015 ACYC;PUBLIC 0 2020-11-29 00:00:00 102 acyc_mda_2015 acyc hg19
Adenoid Cystic Carcinoma (MGH, Nat Gen 2016) ACyC (MGH 2016) Whole-genome/exome sequencing of 10 ACC PDX models. TRUE 26829750 Drier et al. Nature Genetics 2016 ACYC 0 2020-11-29 00:00:00 10 acyc_mgh_2016 acyc hg19
Adenoid Cystic Carcinoma (Sanger/MDA, JCI 2013) ACyC (Sanger 2013) Whole exome sequencing of 24 ACCs. TRUE 23778141 Stephens et al. JCI 2013 ACYC;PUBLIC 0 2020-11-29 00:00:00 24 acyc_sanger_2013 acyc hg19
Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2016) ALL (St. Jude, Nat Gen) Whole-genome and/or whole-exome sequencing of ERG-altered B-ALL tumor/normal pairs. TRUE 27776115 Zhang et al. Nat Genet 2016 PUBLIC 0 2020-11-29 00:00:00 73 all_stjude_2016 bll hg19
The Angiosarcoma Project - Count Me In (Nature Medicine, 2020) ASC Project 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 angiosarcoma patients. Angiosarcoma tumor specimens (FFPE) were subjected to whole-exome sequencing (along with matched germline whole-exome sequencing). In addition to genomic data, this study includes patient-reported data (pre-pended as PRD), medical record data (MedR), and pathology report data (PATH). All annotations have been de-identified. Questions about these data can be directed to . TRUE 32042194 Painter et al. Nat Med 2020 0 2020-11-29 00:00:00 48 angs_project_painter_2018 angs hg19
Adenoid Cystic Carcinoma Project (J Clin Invest 2019) (AACRF,2019) Multi-Institute Cohort of 1045 Adenoid Cystic Carcinoma patients. TRUE 31483290 Allen et al. J Clin Invest 2019 ACYC;PUBLIC 0 2020-11-29 00:00:00 1049 acc_2019 acc hg19
Breast Cancer Xenografts (British Columbia, Nature 2015) Breast (BCCRC Xenograft) Whole genome/targeted sequencing to evaluate the clonal dynamics in 116 breast cancer patient xenografts. TRUE 25470049 Eirew et al. Nature 2015 PUBLIC 0 2020-12-02 00:00:00 117 brca_bccrc_xenograft_2014 brca hg19
Breast Invasive Carcinoma (Broad, Nature 2012) Breast (Broad 2012) Whole-exome sequencing of 103 breast cancer tumor/normal sample pairs. Generated by the Broad Institute. TRUE 22722202 Banerji et al. Nature 2012 PUBLIC 0 2020-12-02 00:00:00 103 brca_broad brca hg19
Kidney Renal Clear Cell Carcinoma (IRC, Nat Genet 2014) ccRCC (IRC) Multi region exome sequencing of 10 clear cell renal cell carcinomas (ccRCCs) TRUE 24487277 Gerlinger et al. Nat Genet 2014 PUBLIC 0 2020-12-02 00:00:00 78 ccrcc_irc_2014 ccrcc hg19
Renal Clear Cell Carcinoma (UTokyo, Nat Genet 2013) ccRCC (UTokyo) Whole exome and/or whole genome sequencing of 106 clear cell renal cell carcinoma tumor/normal pairs. TRUE 23797736 Sato et al. Nat Genet 2013 PUBLIC 0 2020-12-02 00:00:00 106 ccrcc_utokyo_2013 ccrcc hg19
Cholangiocarcinoma (National Cancer Centre of Singapore, Nat Genet 2013) Cholangiocarcinoma (NCCS) Exome sequencing of 15 cholangiocarcinoma cases. TRUE 24185513 Chan-on et al. Nat Genet 2013 PUBLIC 0 2020-12-02 00:00:00 15 chol_nccs_2013 chol hg19
Cholangiocarcinoma (National University of Singapore, Nat Genet 2012) Cholangiocarcinoma (NUS) Exome Sequencing for Opisthorchis viverrini-related cholangiocarcinoma in 8 O.viverrini-related tumors and matched normal tissue. TRUE 22561520 Ong et al. Nat Genet 2012 PUBLIC 0 2020-12-02 00:00:00 8 chol_nus_2012 chol hg19
Breast Invasive Carcinoma (British Columbia, Nature 2012) Breast (BCCRC 2012) Whole genome/exome sequencing analysis of 65 breast cancer samples TRUE 22495314 Shah et al. Nature PUBLIC 0 2020-12-02 00:00:00 65 brca_bccrc brca hg19
Nonmuscle Invasive Bladder Cancer (MSK Eur Urol 2017) NMIBC (MSK Our Urol 2017) IMPACT sequencing of 105 High Risk Nonmuscle Invasive Bladder Cancer samples. TRUE 28583311 Pietzak et al. Eur Urol 2017 PUBLIC 0 2020-12-02 00:00:00 105 blca_nmibc_2017 blca hg19
Breast Cancer (MSKCC, NPJ Breast Cancer 2019) BRCA (MSKCC 2019) Targeted Sequencing of buparlisib + letrozole and alpelisib + letrozole-treated metastatic ER+ unmatched breast tumors. TRUE 31552290 Nixon et al. NPJ Breast Cancer 2019 SOLITD;COMPONC;PUBLIC 0 2020-12-02 00:00:00 70 brca_mskcc_2019 brca hg19
Breast Cancer (MSK, Nature Cancer 2020) BREAST (Alpelisib) Targeted sequencing of pre- and post-treatment tumor/cfDNA samples from 51 Breast Cancer patients to understand the mechanisms of resistance to Alepelisib. TRUE 32864625 Razavi et al. Nature Cancer 2020 PUBLIC 0 2020-12-02 00:00:00 141 breast_alpelisib_2020 breast hg19
Breast Invasive Carcinoma (TCGA, Firehose Legacy) Breast (TCGA) TCGA Breast Invasive Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-04 00:00:00 1108 brca_tcga brca hg19
Bladder Urothelial Carcinoma (TCGA, Nature 2014) Bladder (TCGA 2014) Whole-exome sequencing of 131 high-grade muscle-invasive urothelial bladder carcinomas TRUE 24476821 TCGA, Nature 2014 PUBLIC 0 2020-12-04 00:00:00 131 blca_tcga_pub blca hg19
The Metastatic Breast Cancer Project (Provisional, February 2020) The MBC Project 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 180 patients who developed metastatic breast cancer. 237 samples have undergone whole-exome sequencing (along with matched germline whole-exome sequencing) and 146 of those samples have also undergone RNA-sequencing. This study includes genomic data, patient-reported data (prepended as PRD), medical record data (MedR), and pathology report data (PATH). All annotations have been de-identified. As these data were generated in a research laboratory, not a clinical laboratory, they are for research purposes only and cannot be used to inform clinical decision-making. For questions about these data, including how to cite, please visit www.mbcproject.org/data-release or direct questions to . TRUE NA NA 0 2020-12-04 00:00:00 237 brca_mbcproject_wagle_2017 brca hg19
Pediatric Acute Lymphoid Leukemia - Phase II (TARGET, 2018) ALL-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 pediatric data (i.e., the research objectives cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE NA NA NCI-TARGET;PUBLIC 0 2020-12-04 00:00:00 1978 all_phase2_target_2018_pub bll hg19
Pediatric Acute Myeloid Leukemia (TARGET, 2018) AML (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 objectives cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE NA NA NCI-TARGET;PUBLIC 0 2020-12-04 00:00:00 1025 aml_target_2018_pub aml hg19
Bladder Cancer (TCGA, Cell 2017) BLCA (TCGA 2017) Whole-exome sequencing of 412 muscle-invasive bladder tumors and matched normal samples. TRUE 28988769 Robertson et al. Cell 2017 PUBLIC 0 2020-12-04 00:00:00 413 blca_tcga_pub_2017 blca hg19
Acute Myeloid Leukemia (OHSU, Nature 2018) AML (OHSU) Whole-exome sequencing of 672 acute myeloid leukemia samples (with 454 matched normals) from the Beat AML program. TRUE 30333627 Tyner et al. Nature 2018 PUBLIC 0 2020-12-04 00:00:00 672 aml_ohsu_2018 aml hg19
Breast Cancer (METABRIC, Nature 2012 & Nat Commun 2016) Breast (METABRIC 2016) Targeted sequencing of 2509 primary breast tumors with 548 matched normals. TRUE 27161491,30867590,22522925 Pereira et al. Nat Commun 2016, Rueda et al. Nature 2019, Curtis et al. Nature 2012 0 2020-12-04 00:00:00 2509 brca_metabric brca hg19
Breast Invasive Carcinoma (TCGA, Cell 2015) Breast (TCGA 2015) Whole-exome sequencing of 817 Breast Invasive Carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Breast Invasive Carcinoma Project. TRUE 26451490 TCGA, Cell 2015 PUBLIC 0 2020-12-05 00:00:00 817 brca_tcga_pub2015 brca hg19
Breast Invasive Carcinoma (TCGA, Nature 2012) Breast (TCGA pub) 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 cancer samples. The Cancer Genome Atlas (TCGA) Breast Invasive Carcinoma project. 825 cases.
Nature 2012. Raw data via the TCGA Data Portal.
TRUE 23000897 TCGA, Nature 2012 PUBLIC 0 2020-12-05 00:00:00 825 brca_tcga_pub brca hg19
Colorectal Adenocarcinoma (TCGA, Nature 2012) Colorectal (TCGA pub) Whole exome sequencing in 224 of the 276 colorectal carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Colorectal Cancer project. TRUE 22810696 TCGA, Nature 2012 PUBLIC 0 2020-12-05 00:00:00 276 coadread_tcga_pub coadread hg19
Glioblastoma (TCGA, Nature 2008) GBM (TCGA 2008) Targeted sequencing in 91 of the 206 primary glioblastoma tumors (143 with matched normals) from the Cancer Genome Atlas (TCGA) Glioblastoma Project. TRUE 18772890 TCGA, Nature 2008 PUBLIC 0 2020-12-05 00:00:00 206 gbm_tcga_pub gbm hg19
NCI-60 Cell Lines (NCI, Cancer Res 2012) NCI-60 Whole-exome sequencing of 67 samples by NCI-60 cell line project; raw data at CellMiner. TRUE 22802077 Reinhold et al. Cancer Res 2012 0 2020-12-05 00:00:00 67 cellline_nci60 mixed hg19
Brain Tumor PDXs (Mayo Clinic, 2019) GBM (Mayo PDX) WES on a total of 83 PDXs and 55 PDXs have the matched germline (blood) samples sequenced. A total of 66 PDXs have RNASeq available TRUE NA NA SHULANTIANMAYO;PUBLIC;DECKERPAULMAYO 0 2020-12-05 00:00:00 97 gbm_mayo_pdx_sarkaria_2019 gbm hg19
Cancer Cell Line Encyclopedia (Novartis/Broad, Nature 2012) CCLE (Novartis/Broad 2012) Targeted sequencing of 1020 samples from Cancer Cell Line Encyclopedia from the Broad Institute and Novartis. TRUE 22460905 Barretina et al. Nature 2012 PUBLIC 0 2020-12-06 00:00:00 1020 cellline_ccle_broad mixed hg19
Acute Myeloid Leukemia (TCGA, Firehose Legacy) AML (TCGA) TCGA Acute Myeloid Leukemia. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-08 00:00:00 200 laml_tcga aml hg19
Kidney Renal Clear Cell Carcinoma (TCGA, Firehose Legacy) ccRCC (TCGA) TCGA Kidney Renal Clear Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-08 00:00:00 538 kirc_tcga ccrcc hg19
Kidney Renal Papillary Cell Carcinoma (TCGA, Firehose Legacy) pRCC (TCGA) TCGA Kidney Renal Papillary Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-08 00:00:00 293 kirp_tcga prcc hg19
Acute Myeloid Leukemia (TCGA, NEJM 2013) AML (TCGA pub) 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. TRUE 23634996 TCGA, NEJM 2013 PUBLIC 0 2020-12-08 00:00:00 200 laml_tcga_pub aml hg19
Kidney Renal Clear Cell Carcinoma (TCGA, Nature 2013) ccRCC (TCGA pub) Whole-exome sequencing in 417 of 446 clear cell renal cell carcinoma tumor/normal pairs. TRUE 23792563 TCGA, Nature 2013 PUBLIC 0 2020-12-08 00:00:00 446 kirc_tcga_pub ccrcc hg19
Kidney Chromophobe (TCGA, Cancer Cell 2014) chRCC (TCGA 2014) Whole-exome sequencing of 66 chromophobe renal cell carcinoma (ChRCCs) tumor/normal pairs. TRUE 25155756 TCGA, Cancer Cell 2014 PUBLIC 0 2020-12-08 00:00:00 66 kich_tcga_pub chrcc hg19
Glioblastoma (TCGA, Cell 2013) GBM (TCGA 2013) Whole-exome and/or whole-genome sequencing of 257 of the 543 glioblastoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Glioblastoma Project. TRUE 24120142 TCGA, Cell 2013 0 2020-12-08 00:00:00 543 gbm_tcga_pub2013 gbm hg19
Head and Neck Squamous Cell Carcinoma (TCGA, Nature 2015) Head & neck (TCGA pub) 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. TRUE 25631445 TCGA, Nature 2015 PUBLIC 0 2020-12-08 00:00:00 279 hnsc_tcga_pub hnsc hg19
Lung Adenocarcinoma (OncoSG, Nat Genet 2020) LUAD (OncoSG, 2020) Whole-exome and transcriptome sequencing of 305 east asian lung adenocarcinomas with matched normals. Courtesy of OncoSG. Lung Cancer Consortium Singapore (LCCS). TRUE 32015526 Chen et al. Nat Genet 2020 0 2020-12-08 00:00:00 305 luad_oncosg_2020 luad hg19
Lung Adenocarcinoma (TCGA, Firehose Legacy) Lung adeno (TCGA) TCGA Lung Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-09 00:00:00 586 luad_tcga luad hg19
Lung Squamous Cell Carcinoma (TCGA, Firehose Legacy) Lung squ (TCGA) TCGA Lung Squamous Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-09 00:00:00 511 lusc_tcga lusc hg19
Lung Squamous Cell Carcinoma (TCGA, Nature 2012) Lung squ (TCGA pub) Whole exome sequencing of 178 lung squamous cell carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Lung Squamous Cell Carcinoma project. TRUE 22960745 NA PUBLIC 0 2020-12-09 00:00:00 178 lusc_tcga_pub lusc hg19
Neuroendocrine Prostate Cancer (Multi-Institute, Nat Med 2016) NEPC (Multi-Institute 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). TRUE 26855148 Beltran et al. Nat Med 2016 PUBLIC 0 2020-12-09 00:00:00 114 nepc_wcm_2016 prad hg19
Pheochromocytoma and Paraganglioma (TCGA, Cell 2017) PCPG (TCGA) Whole-exome sequencing of 178 Pheochromocytoma or Paraganglioma tumor/normal pairs. TRUE 28162975 Fishbein et al. Cancer Cell 2017 PUBLIC 0 2020-12-09 00:00:00 178 pcpg_tcga_pub mnet hg19
Metastatic Melanoma (UCLA, Cell 2016) Melanoma (Hugo, Cell) Whole-exome sequencing of 38 pretreated (pembrolizumab, nivolumab) melanoma tumor-normal pairs. TRUE 26997480 Hugo et al. Cell 2016 0 2020-12-09 00:00:00 38 mel_ucla_2016 mel hg19
Pediatric Neuroblastoma (TARGET, 2018) NBL (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 cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE NA NA NCI-TARGET;PUBLIC 0 2020-12-09 00:00:00 1089 nbl_target_2018_pub nbl hg19
Prostate Adenocarcinoma (Fred Hutchinson CRC, Nat Med 2016) Prostate (FHCRC, 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. TRUE 26928463 Kumar et al. Nat Med 2016 PUBLIC 0 2020-12-10 00:00:00 176 prad_fhcrc prad hg19
Prostate Adenocarcinoma (Broad/Cornell, Nat Genet 2012) Prostate (Broad/Cornell 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. TRUE 22610119 Barbieri et al. Nat Genet 2012 PUBLIC 0 2020-12-10 00:00:00 112 prad_broad prad hg19
Prostate Adenocarcinoma (MSKCC, Cancer Cell 2010) Prostate (MSKCC 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. Raw data via GEO (GSE21032).
TRUE 20579941 Taylor et al. Cancer Cell 2010 PUBLIC 0 2020-12-10 00:00:00 240 prad_mskcc prad hg19
Metastatic Prostate Cancer (SU2C/PCF Dream Team, Cell 2015) Prostate (SU2C) Whole-exome sequencing of 150 metastatic prostate cancer tumor/normal pairs by the SU2C/PCF Dream Team. TRUE 26000489 Robinson et al. Cell 2015 PUBLIC 0 2020-12-10 00:00:00 150 prad_su2c_2015 prad hg19
Prostate Adenocarcinoma (TCGA, Cell 2015) Prostate (TCGA 2015) Whole exome and/or whole genome sequencing of 333 primary prostate adenocarcinoma tumor/normal pairs; raw data at the NCI. TRUE 26544944 TCGA, Cell 2015 PUBLIC 0 2020-12-10 00:00:00 333 prad_tcga_pub prad hg19
Adult Soft Tissue Sarcomas (TCGA, Cell 2017) SARC (TCGA CELL) Whole-exome sequencing of 206 Adult Soft Tissue Sarcoma tumor/normal pairs. TRUE 29100075 TCGA, Cell 2017 PUBLIC 0 2020-12-10 00:00:00 206 sarc_tcga_pub soft_tissue hg19
Pediatric Rhabdoid Tumor (TARGET, 2018) RT (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 objectives cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE NA NA NCI-TARGET;PUBLIC 0 2020-12-10 00:00:00 72 rt_target_2018_pub mrt hg19
Prostate Cancer (DKFZ, Cancer Cell 2018) Prostate (DKFZ) Whole genome and transcriptome sequencing of tumor/normal pairs from 292 prostate cancer patients. TRUE 30537516 Gerhauser et al. Cancer Cell 2018 PUBLIC 0 2020-12-10 00:00:00 324 prostate_dkfz_2018 prostate hg19
Metastatic Melanoma (DFCI, Science 2015) Melanoma (Van Allen, Science) Whole-exome sequencing of 110 metastatic melanoma tumor-normal pairs. TRUE 26359337 Van Allen et al. Science 2015 0 2020-12-10 00:00:00 110 skcm_dfci_2015 skcm hg19
Small Cell Lung Cancer (U Cologne, Nature 2015) Small Cell Lung (UCOLOGNE 2015) Whole-genome sequencing of 120 small cell lung cancer(SCLC) tumour samples and matched normal material. TRUE 26168399 George et al. Nature 2015 SCLCPORTAL;PUBLIC 0 2020-12-10 00:00:00 120 sclc_ucologne_2015 sclc hg19
Stomach Adenocarcinoma (TCGA, Firehose Legacy) Stomach (TCGA) TCGA Stomach Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-11 00:00:00 478 stad_tcga stad hg19
Uterine Corpus Endometrial Carcinoma (TCGA, Firehose Legacy) Uterine (TCGA) TCGA Uterine Corpus Endometrial Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-11 00:00:00 548 ucec_tcga ucec hg19
Bladder Cancer (MSKCC, Nat Genet 2016) Bladder PV (MSKCC) Whole exome and targeted sequencing of 34 plasmacytoid-variant (signet ring cell) tumors of the bladder TRUE 26901067 Al-Ahmadie et al. Nat Genet 2016 0 2020-12-11 00:00:00 34 blca_plasmacytoid_mskcc_2016 blca hg19
Papillary Thyroid Carcinoma (TCGA, Cell 2014) Thyroid (TCGA pub) Exome and whole genome sequencing of 496 papillary thyroid carcinoma tumor/normal pairs TRUE 25417114 TCGA, Cell 2014 PUBLIC 0 2020-12-11 00:00:00 496 thca_tcga_pub thpa hg19
Uterine Corpus Endometrial Carcinoma (TCGA, Nature 2013) Uterine (TCGA pub) Whole exome sequencing of 373 endometrial carcinoma tumors with matched normals. TCGA Uterine Corpus Endometrial Carcinoma project; raw data at the NCI. TRUE 23636398 TCGA, Nature 2013 PUBLIC 0 2020-12-11 00:00:00 373 ucec_tcga_pub ucec hg19
Bladder Cancer (MSKCC, Eur Urol 2014) Bladder (MSKCC 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). TRUE 25092538 Kim et al. Eur Urol 2015 PUBLIC 0 2020-12-11 00:00:00 109 blca_mskcc_solit_2014 blca hg19
Metastatic Breast Cancer (INSERM, PLoS Med 2016) BRCA (INSERM 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 MOSCATO (Gustave Roussy, France) prospective trials. TRUE 28027327 Lefebvre et al. PLoS Med 2016 PUBLIC 0 2020-12-11 00:00:00 216 brca_igr_2015 brca hg19
Melanoma (MSKCC, NEJM 2014) Melanoma (Snyder, NEJM) Whole-exome sequencing of 64 pretreated (ipilimumab or tremelimumab) melanoma tumor-normal pairs. TRUE 25409260 Snyder et al. NEJM 2014 0 2020-12-11 00:00:00 64 skcm_mskcc_2014 skcm hg19
Pediatric Wilms’ Tumor (TARGET, 2018) WT (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 cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE NA NA NCI-TARGET;PUBLIC 0 2020-12-11 00:00:00 657 wt_target_2018_pub wt hg19
Urothelial Carcinoma (Cornell/Trento, Nat Gen 2016) BLCA (Cornell 2016) Whole-exome sequencing of 72 tumor samples (with 32 matched normals) in Urothelial Carcinoma. TRUE 27749842 Faltas and Prandi, Nature Genetics 2016 PUBLIC 0 2020-12-11 00:00:00 72 blca_cornell_2016 blca hg19
Adrenocortical Carcinoma (TCGA, Firehose Legacy) ACC (TCGA) TCGA Adrenocortical Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-14 00:00:00 92 acc_tcga acc hg19
Bladder Urothelial Carcinoma (TCGA, Firehose Legacy) Bladder (TCGA) TCGA Bladder Urothelial Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-14 00:00:00 413 blca_tcga blca hg19
Upper Tract Urothelial Cancer (MSK, Eur Urol 2015) Upper tract (MSKCC) 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. TRUE 26278805 Sfakianos et al. Eur Urol 2015 PUBLIC 0 2020-12-14 00:00:00 85 utuc_mskcc_2015 utuc hg19
Prostate Cancer (MSKCC, JCO Precis Oncol 2017) MSK-IMPACT Prostate IMPACT sequencing of 504 prostate cancer tumor/normal pairs. TRUE 28825054 Abida et al. JCO Precis Oncol 2017 PUBLIC 0 2020-12-14 00:00:00 504 prad_mskcc_2017 prad hg19
SUMMIT - Neratinib Basket Study (Multi-Institute, Nature 2018) Neratinib Basket Study MSK-IMPACT sequencing of 86 patients with HER2- and HER3-mutant cancers TRUE 29420467 Hyman et al. Nature 2018 0 2020-12-14 00:00:00 141 summit_2018 mixed hg19
Diffuse Large B-Cell Lymphoma (Duke, Cell 2017) DLBCLNOS (Duke 2017) Whole-exome sequencing of 1,001 Diffuse Large B Cell Lymphoma (DLBCL) tumors (N = 1001) and paired-normal tissue (N = 400). TRUE 28985567 Reddy et al. Cell 2017 PUBLIC 0 2020-12-14 00:00:00 1001 dlbcl_duke_2017 dlbclnos hg19
Breast Cancer (MSK, Cancer Cell 2018) Breast Cancer (MSK, Cancer Cell 2018) Targeted Sequencing of tumor/normal sample pairs from 1918 Breast cancers. TRUE 30205045 Razavi et al. Cancer Cell 2018 0 2020-12-14 00:00:00 1918 breast_msk_2018 breast hg19
Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA, Firehose Legacy) Cervical (TCGA) TCGA Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-16 00:00:00 310 cesc_tcga cesc hg19
Cholangiocarcinoma (TCGA, Firehose Legacy) Cholangiocarcinoma (TCGA) TCGA Cholangiocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-16 00:00:00 51 chol_tcga chol hg19
Kidney Chromophobe (TCGA, Firehose Legacy) chRCC (TCGA) TCGA Kidney Chromophobe. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-16 00:00:00 66 kich_tcga chrcc hg19
Lymphoid Neoplasm Diffuse Large B-cell Lymphoma (TCGA, Firehose Legacy) DLBC (TCGA) TCGA Lymphoid Neoplasm Diffuse Large B-cell Lymphoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-16 00:00:00 48 dlbc_tcga dlbclnos hg19
Esophageal Carcinoma (TCGA, Firehose Legacy) Esophagus (TCGA) TCGA Esophageal Carcinoma . Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-16 00:00:00 186 esca_tcga esca hg19
Head and Neck Squamous Cell Carcinoma (TCGA, Firehose Legacy) Head & neck (TCGA) TCGA Head and Neck Squamous Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-16 00:00:00 530 hnsc_tcga hnsc hg19
Gastric Adenocarcinoma (TMUCIH, PNAS 2015) Stomach (TMUCIH 2015) Whole-exome sequencing of 78 Gastric Adenocarcinomas and their matched normal samples. TRUE 25583476 Chen et al. PNAS 2015 PUBLIC 0 2020-12-16 00:00:00 78 egc_tmucih_2015 egc hg19
Chronic Lymphocytic Leukemia (Broad, Nature 2015) CLL (Broad 2015) Whole exome sequencing of 537 chronic lymphocytic leukemia tumor/normal pairs. TRUE 26466571 Landau et al. Nature 2015 PUBLIC 0 2020-12-16 00:00:00 537 cll_broad_2015 cllsll hg19
Sarcoma (MSKCC/Broad, Nat Genet 2010) Sarcoma (MSKCC/Broad 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. TRUE 20601955 Barretina et al. Nat Genet 2010 0 2020-12-16 00:00:00 207 sarc_mskcc soft_tissue hg19
Skin Cutaneous Melanoma (TCGA, Firehose Legacy) Melanoma (TCGA) TCGA Skin Cutaneous Melanoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 479 skcm_tcga skcm hg19
Pancreatic Adenocarcinoma (TCGA, Firehose Legacy) Pancreas (TCGA) TCGA Pancreatic Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 186 paad_tcga paad hg19
Prostate Adenocarcinoma (TCGA, Firehose Legacy) Prostate (TCGA) TCGA Prostate Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 499 prad_tcga prad hg19
Sarcoma (TCGA, Firehose Legacy) Sarcoma (TCGA) TCGA Sarcoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 265 sarc_tcga soft_tissue hg19
Testicular Germ Cell Cancer (TCGA, Firehose Legacy) Testicular germ cell (TCGA) TCGA Testicular Germ Cell Cancer. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 156 tgct_tcga nsgct hg19
Thymoma (TCGA, Firehose Legacy) Thymoma(TCGA) TCGA Thymoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 124 thym_tcga thym hg19
Uterine Carcinosarcoma (TCGA, Firehose Legacy) Uterine CS (TCGA) TCGA Uterine Carcinosarcoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-17 00:00:00 57 ucs_tcga ucs hg19
Prostate Adenocarcinoma (MSKCC/DFCI, Nature Genetics 2018) PRAD (MSKCC/DFCI 2018) Whole exome Sequencing of 1013 prostate cancer samples and their matched normals. TRUE 29610475 Armenia et al. Nat Genet 2018 0 2020-12-17 00:00:00 1013 prad_p1000 prad hg19
Cancer Cell Line Encyclopedia (Broad, 2019) CCLE (BROAD 2019) Cancer Cell Line Encyclopedia from the Broad Institute and Novartis, updated 2019. Data downloaded from the Broad CCLE Portal. TRUE 31068700 Stransky et al. Nature. 2015 PUBLIC 0 2020-12-22 00:00:00 1739 ccle_broad_2019 mixed hg19
Skin Cutaneous Melanoma (Broad, Cell 2012) Melanoma (Broad 2012) Whole-exome sequencing of 121 melanoma samples with matched normals. TRUE 22817889 Hodis et al. Cell 2012 PUBLIC 0 2020-12-27 00:00:00 121 skcm_broad skcm hg19
Melanoma (Broad/Dana Farber, Nature 2012) Melanoma (Broad/DFCI) Whole Genome Sequencing of 25 metastatic melanoma samples with matched normals TRUE 22622578 Berger et al. Nature 2012 PUBLIC 0 2020-12-27 00:00:00 26 skcm_broad_dfarber skcm hg19
Stomach Adenocarcinoma (Pfizer and UHK, Nat Genet 2014) Stomach (Pfizer UHK) Whole genome sequencing of 100 gastric cancer tumor-normal pairs from the University of Hong Kong and Pfizer. TRUE 24816253 Wang et al. Nat Genet 2014 PUBLIC 0 2020-12-27 00:00:00 100 stad_pfizer_uhongkong stad hg19
Stomach Adenocarcinoma (UHK, Nat Genet 2011) Stomach (UHK) Exome sequencing of 22 gastric cancer samples with matched normals. TRUE 22037554 Wang et al. Nat Genet 2011 PUBLIC 0 2020-12-27 00:00:00 22 stad_uhongkong stad hg19
Stomach Adenocarcinoma (U Tokyo, Nat Genet 2014) Stomach (UTokyo) Whole exome sequencing of 30 diffuse-type gastric adenocarcinoma samples (with matched normals) from the University of Tokyo. TRUE 24816255 Kakiuchi et al. Nat Genet 2014 PUBLIC 0 2020-12-27 00:00:00 30 stad_utokyo stad hg19
Thymic Epithelial Tumors (NCI, Nat Genet 2014) TET (NCI) Whole exome sequencing of 28 thymic epithelial tumors (TETs) with matched normals TRUE 24974848 Petrini at el. Nat Genet 2014 PUBLIC 0 2020-12-27 00:00:00 32 tet_nci_2014 tet hg19
Uterine Carcinosarcoma (Johns Hopkins, Nat Commun 2014) ucs (Johns Hopkins 2014) Whole exome sequencing (WXS) of 22 uterine carcinosarcoma/uterine malignant mixed Mullerian (UCS) tumors with matched normals. TRUE 25233892 Jones et al. Nat Commun 2014 PUBLIC 0 2020-12-27 00:00:00 22 ucs_jhu_2014 ucs hg19
Skin Cutaneous Melanoma(Broad, Cancer Discov 2014) SKCM (BROAD 2014) Exome Sequencing of tumors (with matched normals) from 45 patients with BRAFV600-mutant metastatic melanoma who received vemurafenib or dabrafenib monotherapy. TRUE 24265153 Van Allen et al. Cancer Discov. 2012 0 2020-12-27 00:00:00 78 skcm_broad_brafresist_2012 skcm hg19
Endometrial Cancer (MSK, 2018) UCEC (MSK 2018) MSK-IMPACT sequencing of 197 advanced-staged endometrial cancer tumor samples with matched normals, from 189 patients treated at MSK. TRUE 30068706 Soumerai et al. Clin Cancer Res. 2018 PUBLIC 0 2020-12-27 00:00:00 197 ucec_msk_2018 ucec hg19
Gastric Cancer (OncoSG, 2018) STAD (OncoSG) Whole-genome sequencing of 147 gastric cancer tumors with matched normals. Courtesy of OncoSG. TRUE 29670109 Guo et al. Nat Commun 2018 0 2020-12-27 00:00:00 147 stad_oncosg_2018 stad hg19
Ovarian Serous Cystadenocarcinoma (TCGA, Firehose Legacy) Ovarian (TCGA) TCGA Ovarian Serous Cystadenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2020-12-28 00:00:00 606 ov_tcga hgsoc hg19
Metastatic Melanoma (DFCI, Nature Medicine 2019) MEL (DFCI, Nat Med 2019) Whole-exome sequencing of 144 pre-treatment samples from 144 patients with metastatic melanoma treated with anti-PD1 ICB. TRUE 31792460 Liu et al. Nature Medicine 2019 PUBLIC 0 2020-12-30 00:00:00 144 mel_dfci_2019 mel hg19
Lung Cancer (SMC, Cancer Research 2016) lung (SMC 2016) Whole exome and whole transcriptome sequencing of primary and multiple metastatic lymph node samples from 6 lung cancer patients with their matched normals. TRUE 27634761 Sang-Won et al. Cancer Research 2016 PUBLIC 0 2020-12-30 00:00:00 22 lung_smc_2016 lung hg19
Adrenocortical Carcinoma (TCGA, PanCancer Atlas) ACC (TCGA PanCan 2018) Adrenocortical Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-06 00:00:00 92 acc_tcga_pan_can_atlas_2018 acc hg19
Bladder Urothelial Carcinoma (TCGA, PanCancer Atlas) Bladder (TCGA PanCan 2018) Bladder Urothelial Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-06 00:00:00 411 blca_tcga_pan_can_atlas_2018 blca hg19
Cervical Squamous Cell Carcinoma (TCGA, PanCancer Atlas) Cervical (TCGA PanCan) Cervical Squamous Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-06 00:00:00 297 cesc_tcga_pan_can_atlas_2018 cesc hg19
Uterine Corpus Endometrial Carcinoma (TCGA, PanCancer Atlas) Uterine (TCGA PanCan 2018) Uterine Corpus Endometrial Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-06 00:00:00 529 ucec_tcga_pan_can_atlas_2018 ucec hg19
Cholangiocarcinoma (TCGA, PanCancer Atlas) Cholangiocarcinoma (TCGA PanCan) Cholangiocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-07 00:00:00 36 chol_tcga_pan_can_atlas_2018 chol hg19
Diffuse Large B-Cell Lymphoma (TCGA, PanCancer Atlas) DLBC (TCGA PanCan) Diffuse Large B-Cell Lymphoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-07 00:00:00 48 dlbc_tcga_pan_can_atlas_2018 dlbclnos hg19
Upper Tract Urothelial Carcinoma (IGBMC, Genome Biology 2021) (UTUC, 2021) Whole-exome sequencing of 30 upper-tract urothelial carcinoma patients and their matched normals. TRUE 33397444 Xiaoping et al. Genome Biology 2021 PUBLIC 0 2021-01-07 00:00:00 30 utuc_igbmc_2021 utuc hg19
Esophageal Adenocarcinoma (TCGA, PanCancer Atlas) Esophagus (TCGA PanCan) Esophageal Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-08 00:00:00 182 esca_tcga_pan_can_atlas_2018 esca hg19
Glioblastoma Multiforme (TCGA, PanCancer Atlas) GBM (TCGA PanCan) Glioblastoma Multiforme TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-08 00:00:00 592 gbm_tcga_pan_can_atlas_2018 gbm hg19
Head and Neck Squamous Cell Carcinoma (TCGA, PanCancer Atlas) Head & neck (TCGA PanCan) Head and Neck Squamous Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-08 00:00:00 523 hnsc_tcga_pan_can_atlas_2018 hnsc hg19
Kidney Chromophobe (TCGA, PanCancer Atlas) chromophobe RCC (TCGA PanCan) Kidney Chromophobe TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-14 00:00:00 65 kich_tcga_pan_can_atlas_2018 chrcc hg19
Kidney Renal Clear Cell Carcinoma (TCGA, PanCancer Atlas) ccRCC (TCGA PanCan) Kidney Renal Clear Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-14 00:00:00 512 kirc_tcga_pan_can_atlas_2018 ccrcc hg19
Kidney Renal Papillary Cell Carcinoma (TCGA, PanCancer Atlas) pRCC (TCGA PanCan) Kidney Renal Papillary Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-14 00:00:00 283 kirp_tcga_pan_can_atlas_2018 prcc hg19
Bladder Cancer (MSKCC, J Clin Onco 2013) Bladder (MSKCC 2012) Comprehensive profiling of 97 high-grade bladder tumors, including targeted sequencing of 15 cancer genes TRUE 23897969 Iyer et al. J Clin Oncol 2013 PUBLIC 0 2021-01-16 00:00:00 97 blca_mskcc_solit_2012 blca hg19
Non-Small Cell Cancer (MSKCC, Cancer Discov 2017) LUAD (MSK,2017) Targeted sequencing of 860 patients with metastatic lung adenocarcinoma TRUE 28336552 Jordan et al. Cancer Discov 2017 PUBLIC 0 2021-01-16 00:00:00 915 lung_msk_2017 luad hg19
Metastatic Esophagogastric Cancer (MSKCC, Cancer Discovery 2017) EGC (MSK 2017) Targeted sequencing of 341 samples from 305 metastatic esophagogastric cancer patients TRUE 29122777 Janjigian et al. Cancer Discov 2017 PUBLIC 0 2021-01-16 00:00:00 341 egc_msk_2017 egc hg19
Metastatic Colorectal Cancer (MSKCC, Cancer Cell 2018) CRC(MSK 2018) Targeted sequencing of 1134 metastatic colorectal tumor/normal pairs. TRUE 29316426 Yaeger et al. Cancer Cell 2018 0 2021-01-16 00:00:00 1134 crc_msk_2017 coadread hg19
Thoracic PDX (MSK, Provisional) MIXED (CMO CR_pdx IMPACT) Targeted sequencing of thoracic PDX lines to characterize genetic alterations in 138 tumor/normal pairs via MSK-IMPACT. Data generated in Charles Rudin Lab. TRUE NA NA SCLCPORTAL;RUDINC;COMPONC;PUBLIC 0 2021-01-16 00:00:00 138 lung_msk_pdx lung hg19
Rectal Cancer (MSK,Nature Medicine 2019) Rectal (MSK, 2019) MSK-IMPACT targeted sequencing of matched rectal cancer tumor and tumoroid samples. TRUE NA NA SELCUKLS;SAUVEC;ZHENGY1;SMITHJ5;PUBLIC;SANCHEZF 0 2021-01-16 00:00:00 339 rectal_msk_2019 coadread hg19
Upper Tract Urothelial Carcinoma (MSK, Nat Commun 2020) UTUC (MSK, 2019) Targeted Sequencing of 119 upper tract urothelial carcinoma tumor/normal pairs. TRUE 32332851 Kwanghee et al. Nat Commun 2020 PUBLIC 0 2021-01-16 00:00:00 119 utuc_msk_2019 utuc hg19
Upper Tract Urothelial Carcinoma PDX (MSK, Nat Commun 2020) UTUC PDX (MSK, 2019) MSK-IMPACT sequencing of 34 upper tract urothelial patients and the matching PDX or PDC generated from 17 patient tumors. TRUE 32332851 Kwanghee et al. Nat Commun 2020 0 2021-01-16 00:00:00 78 utuc_pdx_msk_2019 utuc hg19
Esophageal Cancer-TRAP Project (MSK, Lancet Oncol 2020) EGC-TRAP (MSK 2020) Targeted and WES recapture sequencing of tumor/normal samples from 37 Esophageal Cancer patients. TRUE 32437664 Janjigian et al. Lancet Oncol 2020 PUBLIC 0 2021-01-16 00:00:00 68 egc_trap_msk_2020 egc hg19
Metastatic castration-sensitive prostate cancer (MSK, Clin Cancer Res 2020) PRAD_MCSPC (MSK, CCR 2020) MSK-IMPACT sequencing of 424 matched tumor-normal samples from patients with metastatic castration-sensitive prostate cancer. Germline alterations are not shown here. TRUE 32220891 Stopsack et al. Clin Cancer Res 2020 PUBLIC 0 2021-01-16 00:00:00 424 prad_mcspc_mskcc_2020 prad hg19
Bladder Cancer (MSK/TCGA, 2020) BLCA (MSK_TCGA 2020) Whole-exome or targeted sequencing of 476 muscle-invasive bladder tumor/normal pairs via TCGA or MSK-IMPACT sequencing. TRUE NA NA PUBLIC 0 2021-01-16 00:00:00 476 blca_msk_tcga_2020 blca hg19
Acute Myeloid Leukemia (TCGA, PanCancer Atlas) AML (TCGA PanCan) Acute Myeloid Leukemia TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-19 00:00:00 200 laml_tcga_pan_can_atlas_2018 aml hg19
Liver Hepatocellular Carcinoma (TCGA, PanCancer Atlas) Liver (TCGA PanCan) Liver Hepatocellular Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-19 00:00:00 372 lihc_tcga_pan_can_atlas_2018 hcc hg19
Lung Adenocarcinoma (TCGA, PanCancer Atlas) Lung adeno (TCGA PanCan) Lung Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-20 00:00:00 566 luad_tcga_pan_can_atlas_2018 luad hg19
Lung Squamous Cell Carcinoma (TCGA, PanCancer Atlas) Lung squ (TCGA PanCan) Lung Squamous Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-20 00:00:00 487 lusc_tcga_pan_can_atlas_2018 lusc hg19
Mesothelioma (TCGA, PanCancer Atlas) Mesothelioma (TCGA PanCan 2018) Mesothelioma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-20 00:00:00 87 meso_tcga_pan_can_atlas_2018 plmeso hg19
Ovarian Serous Cystadenocarcinoma (TCGA, PanCancer Atlas) Ovarian (TCGA PanCan 2018) Ovarian Serous Cystadenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-01-20 00:00:00 585 ov_tcga_pan_can_atlas_2018 hgsoc hg19
Mixed cfDNA (MSKCC, 2020) Mixed cfDNA (MSKCC 2020) IMPACT sequencing of 229 cell-free DNA (cfDNA) and associated tumor samples with matched normal TRUE NA NA TSUIW;DANALHE3 0 2021-01-29 00:00:00 229 mixed_cfdna_msk_2020 mixed hg19
Colorectal Adenocarcinoma (TCGA, Firehose Legacy) Colorectal (TCGA) TCGA Colorectal Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2021-02-03 00:00:00 640 coadread_tcga coadread hg19
Retinoblastoma (MSK, Cancers 2021) RBL (MSK, Cancers 2021) Targeted sequencing of 83 Retinoblastoma tumor-normal pairs via MSK-IMPACT. Genomic data provided is limited to somatic alterations. TRUE 33466343 Francis et al. Cancers 2021 PUBLIC 0 2021-02-04 00:00:00 83 rbl_mskcc_2020 rbl hg19
Colorectal Adenocarcinoma (TCGA, PanCancer Atlas) Colorectal (TCGA PanCan) Colorectal Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-05 00:00:00 594 coadread_tcga_pan_can_atlas_2018 coadread hg19
Pancreatic Adenocarcinoma (TCGA, PanCancer Atlas) Pancreas (TCGA PanCan 2018) Pancreatic Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 184 paad_tcga_pan_can_atlas_2018 paad hg19
Pheochromocytoma and Paraganglioma (TCGA, PanCancer Atlas) PCPG (TCGA PanCan 2018) Pheochromocytoma and Paraganglioma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 178 pcpg_tcga_pan_can_atlas_2018 soft_tissue hg19
Prostate Adenocarcinoma (TCGA, PanCancer Atlas) Prostate (TCGA PanCan 2018) Prostate Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 494 prad_tcga_pan_can_atlas_2018 prad hg19
Sarcoma (TCGA, PanCancer Atlas) Sarcoma (TCGA PanCan 2018) Sarcoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 255 sarc_tcga_pan_can_atlas_2018 soft_tissue hg19
Skin Cutaneous Melanoma (TCGA, PanCancer Atlas) Melanoma (TCGA PanCan 2018) Skin Cutaneous Melanoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 448 skcm_tcga_pan_can_atlas_2018 skcm hg19
Stomach Adenocarcinoma (TCGA, PanCancer Atlas) Stomach (TCGA PanCan 2018) Stomach Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 440 stad_tcga_pan_can_atlas_2018 stad hg19
Testicular Germ Cell Tumors (TCGA, PanCancer Atlas) Testicular germ cell (TCGA PanCan 2018) Testicular Germ Cell Tumors TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 149 tgct_tcga_pan_can_atlas_2018 testis hg19
Uterine Carcinosarcoma (TCGA, PanCancer Atlas) Uterine CS (TCGA PanCan 2018) Uterine Carcinosarcoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-06 00:00:00 57 ucs_tcga_pan_can_atlas_2018 ucs hg19
Thyroid Carcinoma (TCGA, PanCancer Atlas) Thyroid (TCGA PanCan 2018) Thyroid Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-09 00:00:00 500 thca_tcga_pan_can_atlas_2018 thpa hg19
Thymoma (TCGA, PanCancer Atlas) Thymoma (TCGA PanCan 2018) Thymoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-09 00:00:00 123 thym_tcga_pan_can_atlas_2018 thym hg19
Uveal Melanoma (TCGA, PanCancer Atlas) Uveal melanoma (TCGA PanCan 2018) Uveal melanoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-09 00:00:00 80 uvm_tcga_pan_can_atlas_2018 um hg19
Glioblastoma Multiforme (TCGA, Firehose Legacy) GBM (TCGA) TCGA Glioblastoma Multiforme. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2021-02-24 00:00:00 604 gbm_tcga gbm hg19
Brain Lower Grade Glioma (TCGA, Firehose Legacy) Glioma (TCGA) TCGA Brain Lower Grade Glioma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2021-02-24 00:00:00 530 lgg_tcga difg hg19
Breast Invasive Carcinoma (TCGA, PanCancer Atlas) Breast Invasive Carcinoma Breast (TCGA PanCan 2018) Breast Invasive Carcinoma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-24 00:00:00 1084 brca_tcga_pan_can_atlas_2018 brca hg19
Brain Lower Grade Glioma (TCGA, PanCancer Atlas) LGG (TCGA PanCan) Brain Lower Grade Glioma TCGA PanCancer data. The original data is here. The publications are here. TRUE 29625048,29596782,29622463,29617662,29625055,29625050,29617662,30643250,32214244,29625049,29850653 TCGA, Cell 2018 PUBLIC;PANCAN 0 2021-02-24 00:00:00 514 lgg_tcga_pan_can_atlas_2018 difg hg19
Metaplastic Breast Cancer (MSK, 2021) MBC (MSK, 2021) Targeted or whole-exome sequencing of 19 Metaplastic Breast Cancer tumor/normal pairs. TRUE NA NA 0 2021-02-26 00:00:00 19 mbc_msk_2021 mbc hg19
Melanoma (MSKCC, 2018) MEL (MSKCC 2018) MSK-IMPACT sequencing of 720 Melanoma tumor samples with matched normals. TRUE NA NA 0 2021-02-27 00:00:00 696 mel_mskimpact_2020 skcm hg19
Mesothelioma (TCGA, Firehose Legacy) Mesothelioma (TCGA) TCGA Mesothelioma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2021-03-05 00:00:00 87 meso_tcga plmeso hg19
Pheochromocytoma and Paraganglioma (TCGA, Firehose Legacy) PCPG (TCGA) TCGA Pheochromocytoma and Paraganglioma. Source data from GDAC Firehose. Previously known as TCGA Provisional. TRUE NA NA PUBLIC 0 2021-03-05 00:00:00 184 pcpg_tcga mnet hg19
Lung Adenocarcinoma (TCGA, Nature 2014) Lung adeno (TCGA pub) Whole exome sequencing of 230 lung adenocarcinoma tumor/normal pairs. Raw data via the TCGA Data Portal. TRUE 25079552 TCGA, Nature 2014 PUBLIC 0 2021-03-05 00:00:00 230 luad_tcga_pub luad hg19
Ovarian Serous Cystadenocarcinoma (TCGA, Nature 2011) Ovarian (TCGA pub) Whole exome sequencing of 489 high-grade serous ovarian adenocarcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Serous Ovarian Cancer project. 489 cases.
Raw data via the TCGA Data Portal.
TRUE 21720365 TCGA, Nature 2011 PUBLIC 0 2021-03-05 00:00:00 489 ov_tcga_pub hgsoc hg19

cBioDataPack()

List of available packaged studies in cBioDataPack
cancer_study_id study_name description URL pack_build api_build
paac_jhu_2014 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. TRUE TRUE
mel_tsam_liang_2017 Acral Melanoma (TGEN, Genome Res 2017) Whole exome sequencing and transcriptome analysis of 34 Acral Melanoma patients (33 with matched normals). FALSE TRUE
all_stjude_2015 Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2015) Comprehensive profiling of infant MLL-rearranged acute lymphoblastic leukemia (MLL-R ALL) TRUE FALSE
all_stjude_2016 Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2016) Whole-genome and/or whole-exome sequencing of ERG-altered B-ALL tumor/normal pairs. TRUE TRUE
aml_ohsu_2018 Acute Myeloid Leukemia (OHSU, Nature 2018) Whole-exome sequencing of 672 acute myeloid leukemia samples (with 454 matched normals) from the Beat AML program. TRUE TRUE
laml_tcga Acute Myeloid Leukemia (TCGA, Firehose Legacy) TCGA Acute Myeloid Leukemia. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LAML/20160128/ TRUE TRUE
laml_tcga_pub 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?diseaseType=LAML&diseaseName=Acute%20Myeloid%20Leukemia FALSE FALSE
laml_tcga_pan_can_atlas_2018 Acute Myeloid Leukemia (TCGA, PanCancer Atlas) Acute Myeloid Leukemia TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
mnm_washu_2016 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 . TRUE TRUE
acyc_fmi_2014 Adenoid Cystic Carcinoma (FMI, Am J Surg Pathl. 2014) Targeted Sequencing of 28 metastatic Adenoid Cystic Carcinoma samples. FALSE TRUE
acyc_jhu_2016 Adenoid Cystic Carcinoma (JHU, Cancer Prev Res 2016) Whole-genome or whole-exome sequencing of 25 adenoid cystic carcinoma tumor/normal pairs. TRUE FALSE
acyc_mda_2015 Adenoid Cystic Carcinoma (MDA, Clin Cancer Res 2015) WGS of 21 salivary ACCs and targeted molecular analyses of a validation set (81 patients). TRUE FALSE
acyc_mgh_2016 Adenoid Cystic Carcinoma (MGH, Nat Gen 2016) Whole-genome/exome sequencing of 10 ACC PDX models. TRUE FALSE
acyc_mskcc_2013 Adenoid Cystic Carcinoma (MSKCC, Nat Genet 2013) Whole-exome or whole-genome sequencing analysis of 60 ACC tumor/normal pairs TRUE TRUE
acyc_sanger_2013 Adenoid Cystic Carcinoma (Sanger/MDA, JCI 2013) Whole exome sequencing of 24 ACCs. TRUE TRUE
acc_2019 Adenoid Cystic Carcinoma Project (J Clin Invest 2019) Multi-Institute Cohort of 1045 Adenoid Cystic Carcinoma patients. TRUE TRUE
acbc_mskcc_2015 Adenoid Cystic Carcinoma of the Breast (MSKCC, J Pathol. 2015) Whole exome sequencing of 12 breast AdCCs. TRUE TRUE
acc_tcga Adrenocortical Carcinoma (TCGA, Firehose Legacy) TCGA Adrenocortical Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/ACC/20160128/ TRUE TRUE
acc_tcga_pan_can_atlas_2018 Adrenocortical Carcinoma (TCGA, PanCancer Atlas) Adrenocortical Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
sarc_tcga_pub Adult Soft Tissue Sarcomas (TCGA, Cell 2017) Whole-exome sequencing of 206 Adult Soft Tissue Sarcoma tumor/normal pairs. TRUE TRUE
ampca_bcm_2016 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 be clearly defined morphologically (AMPCA). TRUE TRUE
odg_msk_2017 Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytoma (MSKCC, Neuro Oncol 2017) Genomic characterization using next generation sequencing (NGS) in 22 Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytomas. TRUE TRUE
bcc_unige_2016 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. FALSE TRUE
blca_msk_tcga_2020 Bladder Cancer (MSK/TCGA, 2020) Whole-exome or targeted sequencing of 476 muscle-invasive bladder tumor/normal pairs via TCGA or MSK-IMPACT sequencing. FALSE FALSE
blca_mskcc_solit_2014 Bladder Cancer (MSKCC, 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). TRUE TRUE
blca_mskcc_solit_2012 Bladder Cancer (MSKCC, J Clin Onco 2013) Comprehensive profiling of 97 high-grade bladder tumors, including targeted sequencing of 15 cancer genes FALSE TRUE
blca_plasmacytoid_mskcc_2016 Bladder Cancer (MSKCC, Nat Genet 2016) Whole exome and targeted sequencing of 34 plasmacytoid-variant (signet ring cell) tumors of the bladder TRUE FALSE
blca_tcga_pub_2017 Bladder Cancer (TCGA, Cell 2017) Whole-exome sequencing of 412 muscle-invasive bladder tumors and matched normal samples. TRUE TRUE
blca_bgi Bladder Urothelial Carcinoma (BGI, Nat Genet 2013) Whole-exome and whole-genome sequencing of 99 bladder cancer tumor/normal pairs. Generated by BGI. TRUE TRUE
blca_dfarber_mskcc_2014 Bladder Urothelial Carcinoma (DFCI/MSKCC, Cancer Discov 2014) Whole exome sequencing of tumor/normal samples from 50 patients treated with cisplatin-based chemotherapy for muscle invasive urothelial carcinoma. TRUE TRUE
blca_tcga Bladder Urothelial Carcinoma (TCGA, Firehose Legacy) TCGA Bladder Urothelial Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BLCA/20160128/ TRUE TRUE
blca_tcga_pub Bladder Urothelial Carcinoma (TCGA, Nature 2014) Whole-exome sequencing of 131 high-grade muscle-invasive urothelial bladder carcinomas TRUE FALSE
blca_tcga_pan_can_atlas_2018 Bladder Urothelial Carcinoma (TCGA, PanCancer Atlas) Bladder Urothelial Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
lgg_tcga Brain Lower Grade Glioma (TCGA, Firehose Legacy) TCGA Brain Lower Grade Glioma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LGG/20160128/ TRUE TRUE
lgg_tcga_pan_can_atlas_2018 Brain Lower Grade Glioma (TCGA, PanCancer Atlas) Brain Lower Grade Glioma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
gbm_mayo_pdx_sarkaria_2019 Brain Tumor PDXs (Mayo Clinic, 2019) WES on a total of 83 PDXs and 55 PDXs have the matched germline (blood) samples sequenced. A total of 66 PDXs have RNASeq available TRUE TRUE
brca_metabric Breast Cancer (METABRIC, Nature 2012 & Nat Commun 2016) Targeted sequencing of 2509 primary breast tumors with 548 matched normals. TRUE TRUE
breast_msk_2018 Breast Cancer (MSK, Cancer Cell 2018) Targeted Sequencing of tumor/normal sample pairs from 1918 Breast cancers. TRUE TRUE
breast_alpelisib_2020 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. TRUE TRUE
brca_mskcc_2019 Breast Cancer (MSKCC, NPJ Breast Cancer 2019) Targeted Sequencing of buparlisib + letrozole and alpelisib + letrozole-treated metastatic ER+ unmatched breast tumors. TRUE TRUE
brca_smc_2018 Breast Cancer (SMC 2018) Whole-exome sequencing of 187 primary tumors from a Korean breast cancer cohort (SMC). FALSE TRUE
brca_bccrc_xenograft_2014 Breast Cancer Xenografts (British Columbia, Nature 2015) Whole genome/targeted sequencing to evaluate the clonal dynamics in 116 breast cancer patient xenografts. FALSE TRUE
bfn_duke_nus_2015 Breast Fibroepithelial Tumors (Duke-NUS, Nat Genet 2015) Whole exome sequencing of 22 phyllodes tumors TRUE TRUE
brca_bccrc Breast Invasive Carcinoma (British Columbia, Nature 2012) Whole genome/exome sequencing analysis of 65 breast cancer samples TRUE TRUE
brca_broad Breast Invasive Carcinoma (Broad, Nature 2012) Whole-exome sequencing of 103 breast cancer tumor/normal sample pairs. Generated by the Broad Institute. TRUE TRUE
brca_sanger Breast Invasive Carcinoma (Sanger, Nature 2012) Whole exome sequencing from 100 breast cancer tumor/normal sample pairs. Generated by the Sanger Institute. TRUE TRUE
brca_tcga_pub2015 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. FALSE TRUE
brca_tcga Breast Invasive Carcinoma (TCGA, Firehose Legacy) TCGA Breast Invasive Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/ TRUE TRUE
brca_tcga_pub 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 cancer samples. The Cancer Genome Atlas (TCGA) Breast Invasive Carcinoma project. 825 cases.Nature 2012. Raw data via the TCGA Data Portal. http://cancergenome.nih.gov/, https://tcga-data.nci.nih.gov/docs/publications/brca_2012/ FALSE TRUE
brca_tcga_pan_can_atlas_2018 Breast Invasive Carcinoma (TCGA, PanCancer Atlas) Breast Invasive Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
ccle_broad_2019 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 TRUE TRUE
cellline_ccle_broad Cancer Cell Line Encyclopedia (Novartis/Broad, Nature 2012) Targeted sequencing of 1020 samples from Cancer Cell Line Encyclopedia from the Broad Institute and Novartis. TRUE TRUE
msk_ch_2020 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. FALSE TRUE
cesc_tcga_pan_can_atlas_2018 Cervical Squamous Cell Carcinoma (TCGA, PanCancer Atlas) Cervical Squamous Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
cesc_tcga Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA, Firehose Legacy) TCGA Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/CESC/20160128/ FALSE TRUE
chol_msk_2018 Cholangiocarcinoma (MSK, Clin Cancer Res 2018) Targeted sequencing (MSK-IMPACT) of 195 tumor samples (194 with matched normals) from 192 cholangiocarcinoma patients. TRUE FALSE
chol_nccs_2013 Cholangiocarcinoma (National Cancer Centre of Singapore, Nat Genet 2013) Exome sequencing of 15 cholangiocarcinoma cases. TRUE TRUE
chol_nus_2012 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. TRUE TRUE
chol_tcga Cholangiocarcinoma (TCGA, Firehose Legacy) TCGA Cholangiocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/CHOL/20160128/ TRUE TRUE
chol_tcga_pan_can_atlas_2018 Cholangiocarcinoma (TCGA, PanCancer Atlas) Cholangiocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
lcll_broad_2013 Chronic Lymphocytic Leukemia (Broad, Cell 2013) Whole-exome sequencing of 160 CLL tumor/normal pairs. FALSE TRUE
cll_broad_2015 Chronic Lymphocytic Leukemia (Broad, Nature 2015) Whole exome sequencing of 537 chronic lymphocytic leukemia tumor/normal pairs. TRUE TRUE
cll_iuopa_2015 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. TRUE TRUE
cllsll_icgc_2011 Chronic lymphocytic leukemia (ICGC, Nature Genetics 2011) Whole-exome sequencing of 105 Chronic Lymphocytic Leukemia samples. FALSE TRUE
ccrcc_dfci_2019 Clear Cell Renal Cell Carcinoma (DFCI, Science 2019) Whole-exome sequencing of metastatic clear cell renal carcinoma (ccRCC) from 35 tumor/normal pairs. TRUE TRUE
coad_caseccc_2015 Colon Adenocarcinoma (CaseCCC, PNAS 2015) Whole-exome sequencing of tumor/normal pairs from 29 African American Colon Cancers. TRUE TRUE
coad_cptac_2019 Colon Cancer (CPTAC-2 Prospective, Cell 2019) Whole Exome Sequencing of 110 colon adenocarcinoma tumor samples. TRUE TRUE
coadread_dfci_2016 Colorectal Adenocarcinoma (DFCI, Cell Reports 2016) Whole-exome sequencing of 619 colorectal cancers with clinicopathologic annotations. TRUE TRUE
coadread_genentech Colorectal Adenocarcinoma (Genentech, Nature 2012) Whole-genome sequencing of 74 paired colon tumor-normal samples. TRUE TRUE
coadread_tcga Colorectal Adenocarcinoma (TCGA, Firehose Legacy) TCGA Colorectal Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/COADREAD/20160128/ TRUE TRUE
coadread_tcga_pub 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. TRUE TRUE
coadread_tcga_pan_can_atlas_2018 Colorectal Adenocarcinoma (TCGA, PanCancer Atlas) Colorectal Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
coadread_mskcc Colorectal Adenocarcinoma Triplets (MSKCC, Genome Biol 2014) Targeted sequencing of primary, metastatic, and normal tissues from 69 colorectal adenocarcinoma patients. TRUE TRUE
cscc_dfarber_2015 Cutaneous Squamous Cell Carcinoma (DFCI, Clin Cancer Res 2015) Targeted sequencing of 29 metastatic cutaneous squamous cell carcinoma samples. TRUE TRUE
cscc_hgsc_bcm_2014 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. TRUE TRUE
ctcl_columbia_2015 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). FALSE TRUE
pact_jhu_2011 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 neoplasms (SPNs). TRUE TRUE
desm_broad_2015 Desmoplastic Melanoma (Broad Institute, Nat Genet 2015) Exome/Whole Genome sequencing of 20 desmoplastic melanoma tumor/normal pairs. TRUE TRUE
dlbcl_dfci_2018 Diffuse Large B cell Lymphoma (DFCI, Nat Med 2018) Whole-exome sequencing of tumor/matching normal sample pairs from 135 DLBCL patients. TRUE TRUE
dlbc_broad_2012 Diffuse Large B-Cell Lymphoma (Broad, PNAS 2012) Whole exome sequencing of 58 primary DLBCL samples and their matched normals. FALSE TRUE
dlbcl_duke_2017 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). TRUE TRUE
dlbc_tcga_pan_can_atlas_2018 Diffuse Large B-Cell Lymphoma (TCGA, PanCancer Atlas) Diffuse Large B-Cell Lymphoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
nhl_bcgsc_2013 Diffuse Large B-cell Lymphoma (BCGSC, Blood 2013) Whole genome sequencing of 40 DLBCL tumor/normal pairs and 13 cell lines. TRUE FALSE
ucec_msk_2018 Endometrial Cancer (MSK, 2018) MSK-IMPACT sequencing of 197 advanced-staged endometrial cancer tumor samples with matched normals, from 189 patients treated at MSK. TRUE TRUE
esca_broad 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. TRUE TRUE
esca_tcga_pan_can_atlas_2018 Esophageal Adenocarcinoma (TCGA, PanCancer Atlas) Esophageal Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
egc_trap_msk_2020 Esophageal Cancer-TRAP Project (MSK, Lancet Oncol 2020) Targeted and WES recapture sequencing of tumor/normal samples from 37 Esophageal Cancer patients. TRUE FALSE
esca_tcga Esophageal Carcinoma (TCGA, Firehose Legacy) TCGA Esophageal Carcinoma . Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/ESCA/20160128/ TRUE TRUE
stes_tcga_pub Esophageal Carcinoma (TCGA, Nature 2017) Whole exome sequencing of 559 esophageal and gastric carcinoma tumors with matched normals. TRUE TRUE
escc_icgc Esophageal Squamous Cell Carcinoma (ICGC, Nature 2014) Whole-genome or whole-exome sequencing of 88 esophageal squamous cell carcinoma tumor/normal pairs. TRUE TRUE
escc_ucla_2014 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. TRUE TRUE
es_iocurie_2014 Ewing Sarcoma (Institut Curie, Cancer Discov 2014) Whole-genome sequencing of 112 Ewing sarcoma samples and matched germ line DNA. TRUE TRUE
gbc_msk_2018 Gallbladder Cancer (MSK, Cancer 2018) Targeted Sequencing of 103 samples with matched normals from 101 Gallbladder cancer patients. TRUE TRUE
gbc_shanghai_2014 Gallbladder Carcinoma (Shanghai, Nat Genet 2014) Whole exome sequencing of 32 gallbladder carcinoma tumor/normal pairs. TRUE TRUE
egc_tmucih_2015 Gastric Adenocarcinoma (TMUCIH, PNAS 2015) Whole-exome sequencing of 78 Gastric Adenocarcinomas and their matched normal samples. TRUE TRUE
stad_oncosg_2018 Gastric Cancer (OncoSG, 2018) Whole-genome sequencing of 147 gastric cancer tumors with matched normals. Courtesy of OncoSG. https://src.gisapps.org/OncoSG/ TRUE TRUE
gct_msk_2016 Germ Cell Tumors (MSKCC, J Clin Oncol 2016) Whole-exome and Targeted sequencing of 19 samples and Targeted sequencing of 161 samples from 180 Germ Cell Tumor patients. TRUE FALSE
gct_msk_2020 Germ Cell Tumors and Shared Leukemias (MSK, 2020) Targeted and WES sequencing of germ cell tumor and shared leukemia samples. FALSE TRUE
gbm_columbia_2019 Glioblastoma (Columbia, Nat Med. 2019) Whole-exome sequencing of 32 out of 42 glioblastomas patients with matched normals. FALSE TRUE
gbm_tcga_pub2013 Glioblastoma (TCGA, Cell 2013) Whole-exome and/or whole-genome sequencing of 257 of the 543 glioblastoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Glioblastoma Project. FALSE TRUE
gbm_tcga_pub 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. TRUE TRUE
gbm_tcga Glioblastoma Multiforme (TCGA, Firehose Legacy) TCGA Glioblastoma Multiforme. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/GBM/20160128/ TRUE TRUE
gbm_tcga_pan_can_atlas_2018 Glioblastoma Multiforme (TCGA, PanCancer Atlas) Glioblastoma Multiforme TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
glioma_msk_2018 Glioma (MSK, Nature 2019) Targeted Sequencing of CSF samples (91 samples with 86 matched normals) from 42 glioma patients. FALSE FALSE
glioma_mskcc_2019 Glioma (MSKCC, Clin Cancer Res 2019) Targeted sequencing on MSK-IMPACT and FMI Panels of 1004 samples (837 with matched normals) from 923 glioma patients. FALSE TRUE
hnsc_broad Head and Neck Squamous Cell Carcinoma (Broad, Science 2011) Whole-exome sequencing of 74 head and neck squamous cell carcinoma tumor/normal pairs. TRUE TRUE
hnsc_jhu Head and Neck Squamous Cell Carcinoma (Johns Hopkins, Science 2011) Exome sequencing of 32 head and neck squamous cell carcinoma tumor/normal sample pairs. TRUE TRUE
hnsc_tcga Head and Neck Squamous Cell Carcinoma (TCGA, Firehose Legacy) TCGA Head and Neck Squamous Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/HNSC/20160128/ TRUE TRUE
hnsc_tcga_pub 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. TRUE FALSE
hnsc_tcga_pan_can_atlas_2018 Head and Neck Squamous Cell Carcinoma (TCGA, PanCancer Atlas) Head and Neck Squamous Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
liad_inserm_fr_2014 Hepatocellular Adenoma (INSERM, Cancer Cell 2014) Whole-exome sequencing of 46 liver tumor/normal pairs. TRUE TRUE
hcc_mskimpact_2018 Hepatocellular Carcinoma (MSK, Clin Cancer Res 2018) MSK-IMPACT sequencing of 127 Hepatocellular Carcinoma tumor samples with matched normals. TRUE FALSE
hcc_inserm_fr_2015 Hepatocellular Carcinomas (INSERM, Nat Genet 2015) Whole-exome sequencing of 243 liver tumors and matched normals. TRUE TRUE
histiocytosis_cobi_msk_2019 Histiocytosis Cobimetinib (MSK, Nature 2019) Targeted and whole exome sequencing of 52 histiocytosis tumor/normal pairs. TRUE TRUE
all_stjude_2013 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. TRUE TRUE
panet_shanghai_2013 Insulinoma (Shanghai, Nat Commun 2013) Whole exome sequencing of 10 benign insulinoma tumor/normal pairs. TRUE TRUE
chol_jhu_2013 Intrahepatic Cholangiocarcinoma (JHU, Nat Genet 2013) Exome sequencing of tumor/normal pairs from 32 intrahepatic cholangiocarcinoma cases and 8 gall bladder carcinoma cases. FALSE TRUE
ihch_smmu_2014 Intrahepatic Cholangiocarcinoma (Shanghai, Nat Commun 2014) Whole exome sequencing of 103 tumor/normal sample pairs in 103 intrahepatic cholangiocarcinoma patients. FALSE TRUE
brca_jup_msk_2020 Juvenile Papillomatosis and Breast Cancer (MSK, 2020) Whole-exome sequencing analysis of juvenile papillomatosis and coexisting breast carcinoma. FALSE TRUE
kich_tcga_pub Kidney Chromophobe (TCGA, Cancer Cell 2014) Whole-exome sequencing of 66 chromophobe renal cell carcinoma (ChRCCs) tumor/normal pairs. TRUE TRUE
kich_tcga Kidney Chromophobe (TCGA, Firehose Legacy) TCGA Kidney Chromophobe. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KICH/20160128/ TRUE TRUE
kich_tcga_pan_can_atlas_2018 Kidney Chromophobe (TCGA, PanCancer Atlas) Kidney Chromophobe TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
kirc_bgi 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. TRUE TRUE
ccrcc_irc_2014 Kidney Renal Clear Cell Carcinoma (IRC, Nat Genet 2014) Multi region exome sequencing of 10 clear cell renal cell carcinomas (ccRCCs) TRUE TRUE
kirc_tcga Kidney Renal Clear Cell Carcinoma (TCGA, Firehose Legacy) TCGA Kidney Renal Clear Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KIRC/20160128/ TRUE TRUE
kirc_tcga_pub Kidney Renal Clear Cell Carcinoma (TCGA, Nature 2013) Whole-exome sequencing in 417 of 446 clear cell renal cell carcinoma tumor/normal pairs. TRUE FALSE
kirc_tcga_pan_can_atlas_2018 Kidney Renal Clear Cell Carcinoma (TCGA, PanCancer Atlas) Kidney Renal Clear Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
kirp_tcga Kidney Renal Papillary Cell Carcinoma (TCGA, Firehose Legacy) TCGA Kidney Renal Papillary Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KIRP/20160128/ TRUE TRUE
kirp_tcga_pan_can_atlas_2018 Kidney Renal Papillary Cell Carcinoma (TCGA, PanCancer Atlas) Kidney Renal Papillary Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
hcc_msk_venturaa_2018 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. FALSE TRUE
lihc_amc_prv Liver Hepatocellular Carcinoma (AMC, Hepatology 2014) Whole exome sequencing of 231 hepatocellular carcinomas and matched normal tissue pairs. TRUE TRUE
lihc_riken Liver Hepatocellular Carcinoma (RIKEN, Nat Genet 2012) Whole-genome sequencing of 27 hepatocellular carcinoma tumor/norma pairs from RIKEN. TRUE TRUE
lihc_tcga Liver Hepatocellular Carcinoma (TCGA, Firehose Legacy) TCGA Liver Hepatocellular Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LIHC/20160128/ TRUE TRUE
lihc_tcga_pan_can_atlas_2018 Liver Hepatocellular Carcinoma (TCGA, PanCancer Atlas) Liver Hepatocellular Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
lgg_ucsf_2014 Low-Grade Gliomas (UCSF, Science 2014) Whole exome sequencing of 23 grade II glioma tumor/normal pairs. FALSE TRUE
luad_broad Lung Adenocarcinoma (Broad, Cell 2012) Whole-exome and/or whole-genome sequencing of 183 lung adenocarcinomas and matched normal tissue pairs. TRUE TRUE
luad_mskcc_2015 Lung Adenocarcinoma (MSKCC, Science 2015) Whole-exome sequencing of 34 non small cell lung cancer tumor/normal pairs. TRUE TRUE
luad_oncosg_2020 Lung Adenocarcinoma (OncoSG, Nat Genet 2020) Whole-exome and transcriptome sequencing of 305 east asian lung adenocarcinomas with matched normals. Courtesy of OncoSG. Lung Cancer Consortium Singapore (LCCS). https://src.gisapps.org/OncoSG/ FALSE FALSE
luad_tcga Lung Adenocarcinoma (TCGA, Firehose Legacy) TCGA Lung Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LUAD/20160128/ TRUE TRUE
luad_tcga_pub 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/ FALSE FALSE
luad_tcga_pan_can_atlas_2018 Lung Adenocarcinoma (TCGA, PanCancer Atlas) Lung Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
luad_tsp Lung Adenocarcinoma (TSP, Nature 2008) Targeted sequencing of 163 lung adenocarcinoma tumor/normal pairs. Generated by WashU/Broad. FALSE TRUE
lung_smc_2016 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. FALSE TRUE
lusc_tcga Lung Squamous Cell Carcinoma (TCGA, Firehose Legacy) TCGA Lung Squamous Cell Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LUSC/20160128/ TRUE TRUE
lusc_tcga_pub Lung Squamous Cell Carcinoma (TCGA, Nature 2012) Whole exome sequencing of 178 lung squamous cell carcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Lung Squamous Cell Carcinoma project. http://cancergenome.nih.gov/ FALSE TRUE
lusc_tcga_pan_can_atlas_2018 Lung Squamous Cell Carcinoma (TCGA, PanCancer Atlas) Lung Squamous Cell Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
dlbc_tcga Lymphoid Neoplasm Diffuse Large B-cell Lymphoma (TCGA, Firehose Legacy) TCGA Lymphoid Neoplasm Diffuse Large B-cell Lymphoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/DLBC/20160128/ TRUE TRUE
lymphoma_cellline_msk_2020 Lymphoma Cell Lines (MSKCC, 2020) Targeted sequencing of 34 lymphoma cell lines using HemePACT_v3 TRUE TRUE
msk_impact_2017 MSK-IMPACT Clinical Sequencing Cohort (MSKCC, Nat Med 2017) Targeted sequencing of 10,000 clinical cases using the MSK-IMPACT assay TRUE TRUE
mixed_allen_2018 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, head and neck cancer, and bladder cancer. TRUE TRUE
mpnst_mskcc Malignant Peripheral Nerve Sheath Tumor (MSKCC, Nat Genet 2014) Whole exome sequencing of 15 malignant peripheral nerve sheath tumor/normal pairs. TRUE FALSE
mcl_idibips_2013 Mantle Cell Lymphoma (IDIBIPS, PNAS 2013) Whole exome sequencing of 29 primary mantle cell lymphomas and their matched normals. FALSE TRUE
mbn_mdacc_2013 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.biorxiv.org/content/10.1101/674259v1.full FALSE TRUE
mbl_broad_2012 Medulloblastoma (Broad, Nature 2012) Whole exome sequencing of 92 primary medulloblastoma tumor/normal pairs. FALSE TRUE
mbl_icgc Medulloblastoma (ICGC, Nature 2012) Comprehensive profiling of 125 matched tumor and germline medulloblastoma samples TRUE TRUE
mbl_pcgp 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. TRUE TRUE
mbl_sickkids_2016 Medulloblastoma (Sickkids, Nature 2016) Whole-genome sequencing of 46 recurrent medulloblastoma samples. TRUE FALSE
skcm_broad_dfarber Melanoma (Broad/Dana Farber, Nature 2012) Whole Genome Sequencing of 25 metastatic melanoma samples with matched normals TRUE TRUE
skcm_mskcc_2014 Melanoma (MSKCC, NEJM 2014) Whole-exome sequencing of 64 pretreated (ipilimumab or tremelimumab) melanoma tumor-normal pairs. TRUE TRUE
skcm_tcga_pub_2015 Melanomas (TCGA, Cell 2015) Whole-exome sequencing of 333 primary and/or metastatic melanomas. FALSE TRUE
lgggbm_tcga_pub Merged Cohort of LGG and GBM (TCGA, Cell 2016) Whole-exome sequencing from 1,122 TCGA LGG and GBM cases. TRUE TRUE
meso_tcga Mesothelioma (TCGA, Firehose Legacy) TCGA Mesothelioma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/MESO/20160128/ TRUE TRUE
meso_tcga_pan_can_atlas_2018 Mesothelioma (TCGA, PanCancer Atlas) Mesothelioma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
brca_igr_2015 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 MOSCATO (Gustave Roussy, France) prospective trials. TRUE TRUE
crc_msk_2017 Metastatic Colorectal Cancer (MSKCC, Cancer Cell 2018) Targeted sequencing of 1134 metastatic colorectal tumor/normal pairs. TRUE TRUE
egc_msk_2017 Metastatic Esophagogastric Cancer (MSKCC, Cancer Discovery 2017) Targeted sequencing of 341 samples from 305 metastatic esophagogastric cancer patients TRUE TRUE
mel_dfci_2019 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. FALSE TRUE
skcm_dfci_2015 Metastatic Melanoma (DFCI, Science 2015) Whole-exome sequencing of 110 metastatic melanoma tumor-normal pairs. TRUE TRUE
skcm_vanderbilt_mskcc_2015 Metastatic Melanoma (MSKCC, JCO Precis Oncol 2017) Targeted sequencing of pre-treatment 66 Melanoma tumor samples. PubMed https://ascopubs.org/doi/full/10.1200/PO.16.00054 TRUE TRUE
mel_ucla_2016 Metastatic Melanoma (UCLA, Cell 2016) Whole-exome sequencing of 38 pretreated (pembrolizumab, nivolumab) melanoma tumor-normal pairs. TRUE TRUE
prad_mich 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. TRUE FALSE
prad_su2c_2019 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. TRUE FALSE
prad_su2c_2015 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. FALSE FALSE
metastatic_solid_tumors_mich_2017 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. TRUE TRUE
prad_mcspc_mskcc_2020 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. TRUE FALSE
cfdna_msk_2019 Mixed cfDNA (MSK, Nature Medicine 2019) Targeted sequencing of 248 samples from 124 patients’ cfDNA/WBC and tumor/normal pairs. TRUE TRUE
mixed_cfdna_msk_2020 Mixed cfDNA (MSKCC, 2020) IMPACT sequencing of 229 cell-free DNA (cfDNA) and associated tumor samples with matched normal FALSE TRUE
mm_broad Multiple Myeloma (Broad, Cancer Cell 2014) Whole-exome or whole-genome sequencing of 203 multiple myeloma paired tumor/normal sample pairs. TRUE TRUE
mds_tokyo_2011 Myelodysplasia (UTokyo, Nature 2011) Whole exome sequencing of 29 myelodysplasia tumor/normal pairs. TRUE TRUE
mds_mskcc_2020 Myelodysplastic (MSKCC, 2020) Single-cell genomics reveals the genetic and molecular bases for escape from mutational epistasis in myeloid neoplasms FALSE TRUE
mpn_cimr_2013 Myeloproliferative Neoplasms (CIMR, NEJM 2013) Whole exome sequencing of paired tumor/normal pairs from 151 cases of Myeloproliferative Neoplasms. FALSE TRUE
cellline_nci60 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 TRUE TRUE
npc_nusingapore Nasopharyngeal Carcinoma (Singapore, Nat Genet 2014) Whole exome sequencing of 56 NPC tumor/normal pairs. TRUE TRUE
nbl_amc_2012 Neuroblastoma (AMC Amsterdam, Nature 2012) Whole genome sequencing of 87 primary neuroblastoma tumors and their matched normals. TRUE TRUE
nbl_broad_2013 Neuroblastoma (Broad, Nat Genet 2013) Whole Genome and Whole Exome sequencing of 240 high-risk neuroblastoma tumor/normal pairs. TRUE TRUE
nbl_ucologne_2015 Neuroblastoma (Broad, Nature 2015) Whole-genome sequencing of 56 neuroblastoma tumor/normal pairs. TRUE TRUE
nepc_wcm_2016 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). TRUE TRUE
nhl_bcgsc_2011 Non-Hodgkin Lymphoma (BCGSC, Nature 2011) Whole genome or whole exome sequencing of 14 NHL tumors and their matched normals. TRUE FALSE
lung_msk_2017 Non-Small Cell Cancer (MSKCC, Cancer Discov 2017) Targeted sequencing of 860 patients with metastatic lung adenocarcinoma TRUE TRUE
nsclc_mskcc_2018 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.. TRUE TRUE
nsclc_pd1_msk_2018 Non-Small Cell Lung Cancer (MSKCC, J Clin Oncol 2018) IMPACT sequencing of 240 NSCLC tumor/normal pairs treated at MSKCC with anti-PD-(L)1 based therapy. TRUE TRUE
nsclc_tracerx_2017 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. FALSE TRUE
nsclc_unito_2016 Non-Small Cell Lung Cancer (University of Turin, Lung Cancer 2017) Targeted next-generation sequencing of 41 NSCLC samples. FALSE TRUE
nsclc_mskcc_2015 Non-small cell lung cancer (MSK, Science 2015) Whole-exome sequencing of tumor-normal tissue pairs from 16 non-small cell lung cancer samples. TRUE TRUE
blca_nmibc_2017 Nonmuscle Invasive Bladder Cancer (MSK Eur Urol 2017) IMPACT sequencing of 105 High Risk Nonmuscle Invasive Bladder Cancer samples. TRUE TRUE
hnsc_mdanderson_2013 Oral Squamous Cell Carcinoma (MD Anderson, Cancer Discov 2013) Comprehensive profiling of 40 oral squamous cell carcinoma tumor/normal sample pairs. TRUE TRUE
ov_tcga Ovarian Serous Cystadenocarcinoma (TCGA, Firehose Legacy) TCGA Ovarian Serous Cystadenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/OV/20160128/ TRUE TRUE
ov_tcga_pub Ovarian Serous Cystadenocarcinoma (TCGA, Nature 2011) Whole exome sequencing of 489 high-grade serous ovarian adenocarcinoma tumor/normal pairs. The Cancer Genome Atlas (TCGA) Serous Ovarian Cancer project. 489 cases. Raw data via the TCGA Data Portal. http://cancergenome.nih.gov/, https://tcga-data.nci.nih.gov/docs/publications/ov_2011/ FALSE TRUE
ov_tcga_pan_can_atlas_2018 Ovarian Serous Cystadenocarcinoma (TCGA, PanCancer Atlas) Ovarian Serous Cystadenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
nsclc_tcga_broad_2016 Pan-Lung Cancer (TCGA, Nat Genet 2016) Whole-exome sequencing of 660 lung ADC and 484 lung SqCC tumor/normal pairs. FALSE FALSE
paad_icgc Pancreatic Adenocarcinoma (ICGC, Nature 2012) Whole-exome sequencing of 99 pancreatic samples and their matched normals. TRUE TRUE
paad_qcmg_uq_2016 Pancreatic Adenocarcinoma (QCMG, Nature 2016) Whole-genome and deep-exome sequencing analysis of 456 pancreatic ductal adenocarcinomas TRUE TRUE
paad_tcga Pancreatic Adenocarcinoma (TCGA, Firehose Legacy) TCGA Pancreatic Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PAAD/20160128/ TRUE TRUE
paad_tcga_pan_can_atlas_2018 Pancreatic Adenocarcinoma (TCGA, PanCancer Atlas) Pancreatic Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
paad_utsw_2015 Pancreatic Cancer (UTSW, Nat Commun 2015) Whole exome sequencing of 109 micro-dissected pancreatic cancer cases and normal control tissue. TRUE TRUE
panet_jhu_2011 Pancreatic Neuroendocrine Tumors (Johns Hopkins University, Science 2011) Whole exome sequencing of 10 pancreatic neuroendocrine tumor patients. TRUE TRUE
panet_arcnet_2017 Pancreatic Neuroendocrine Tumors (Multi-Institute, Nature 2017) Whole-genome sequencing of 98 pancreatic neuroendocrine tumours (PanNETs) and matched normal DNA pairs. TRUE TRUE
thca_tcga_pub Papillary Thyroid Carcinoma (TCGA, Cell 2014) Exome and whole genome sequencing of 496 papillary thyroid carcinoma tumor/normal pairs FALSE FALSE
all_phase2_target_2018_pub 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 pediatric data (i.e., the research objectives cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE TRUE
aml_target_2018_pub 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 objectives cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE TRUE
es_dfarber_broad_2014 Pediatric Ewing Sarcoma (DFCI, Cancer Discov 2014) Whole exome sequencing of 96 pediatric Ewing Sarcoma tumors and 11 cell lines. TRUE FALSE
nbl_target_2018_pub 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 cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE TRUE
pediatric_dkfz_2017 Pediatric Pan-Cancer (DKFZ, Nature 2017) Whole-genome/exome sequencing of 961 Pediatric Cancer samples. Data generated from Pfister Lab & DKFZ/German Cancer Consortium. FALSE TRUE
mixed_pipseq_2017 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. TRUE TRUE
pptc_2019 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 http://www.ncipptc.org/ TRUE FALSE
rt_target_2018_pub 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 objectives cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE TRUE
wt_target_2018_pub 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 cannot be accomplished using data from adults) that focus on the development of more effective treatments, diagnostic tests, or prognostic markers for childhood cancers. Moreover, TARGET data can be used for research relevant to the biology, causes, treatment and late complications of treatment of pediatric cancers, but is not intended for the sole purposes of methods and/or tool development (please see Using TARGET Data section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the TARGET Publication Guidelines.

TRUE TRUE
pcpg_tcga_pub Pheochromocytoma and Paraganglioma (TCGA, Cell 2017) Whole-exome sequencing of 178 Pheochromocytoma or Paraganglioma tumor/normal pairs. TRUE TRUE
pcpg_tcga Pheochromocytoma and Paraganglioma (TCGA, Firehose Legacy) TCGA Pheochromocytoma and Paraganglioma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PCPG/20160128/ TRUE TRUE
pcpg_tcga_pan_can_atlas_2018 Pheochromocytoma and Paraganglioma (TCGA, PanCancer Atlas) Pheochromocytoma and Paraganglioma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
past_dkfz_heidelberg_2013 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. TRUE FALSE
plmeso_nyu_2015 Pleural Mesothelioma (NYU, Cancer Res 2015) Whole-exome sequencing of 22 malignant pleural mesotheliomas (PLMESO) tumor/normal pairs. TRUE TRUE
thyroid_mskcc_2016 Poorly-Differentiated and Anaplastic Thyroid Cancers (MSKCC, JCI 2016) Targeted sequencing of 341 cancer genes from 117 patient-derived PDTCs and ATCs FALSE FALSE
pcnsl_mayo_2015 Primary Central Nervous System Lymphoma (Mayo Clinic, Clin Cancer Res 2015) Exome sequencing of 19 immunocompetent primary central nervous system lymphoma (PCNSL) samples. TRUE TRUE
prad_broad_2013 Prostate Adenocarcinoma (Broad/Cornell, Cell 2013) Whole genome sequencing of 57 prostate tumor and matches normal tissues. TRUE FALSE
prad_broad 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. TRUE TRUE
prad_cpcg_2017 Prostate Adenocarcinoma (CPC-GENE, Nature 2017) Whole-genome/exome sequencing of 477 prostate samples from CPC-GENE and public data sets, including TCGA-PRAD. TRUE TRUE
prad_fhcrc 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. FALSE TRUE
prad_cdk12_mskcc_2020 Prostate Adenocarcinoma (MSK, Eur Urol 2020) Targeted sequencing of 1465 prostate adenocarcinoma tumor/normal pairs via MSK-IMPACT. FALSE TRUE
prad_mskcc Prostate Adenocarcinoma (MSKCC, 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. Raw data via GEO (GSE21032). http://cbio.mskcc.org/cancergenomics/prostate/data/, http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21032 TRUE TRUE
prad_mskcc_2014 Prostate Adenocarcinoma (MSKCC, 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 TRUE TRUE
prad_p1000 Prostate Adenocarcinoma (MSKCC/DFCI, Nature Genetics 2018) Whole exome Sequencing of 1013 prostate cancer samples and their matched normals. TRUE FALSE
prad_eururol_2017 Prostate Adenocarcinoma (SMMU, Eur Urol 2017) Whole-genome and transcriptome sequencing of 65 Prostate Adenocarcinoma tumor/normal pairs. TRUE FALSE
prad_tcga_pub 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/ TRUE FALSE
prad_tcga Prostate Adenocarcinoma (TCGA, Firehose Legacy) TCGA Prostate Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PRAD/20160128/ TRUE TRUE
prad_tcga_pan_can_atlas_2018 Prostate Adenocarcinoma (TCGA, PanCancer Atlas) Prostate Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
prad_mskcc_cheny1_organoids_2014 Prostate Adenocarcinoma Organoids (MSKCC, Cell 2014) Exome sequencing of 12 advanced prostate cancer samples and matched organoids TRUE TRUE
prostate_dkfz_2018 Prostate Cancer (DKFZ, Cancer Cell 2018) Whole genome and transcriptome sequencing of tumor/normal pairs from 292 prostate cancer patients. TRUE TRUE
prad_msk_2019 Prostate Cancer (MSK, Cell Metab 2020) MSK-IMPACT Sequencing of 18 prostate cancer tumor/normal pairs. TRUE FALSE
prad_mskcc_2017 Prostate Cancer (MSKCC, JCO Precis Oncol 2017) IMPACT sequencing of 504 prostate cancer tumor/normal pairs. TRUE FALSE
rectal_msk_2019 Rectal Cancer (MSK,Nature Medicine 2019) MSK-IMPACT targeted sequencing of matched rectal cancer tumor and tumoroid samples. TRUE TRUE
hnc_mskcc_2016 Recurrent and Metastatic Head & Neck Cancer (MSKCC, JAMA Oncol 2016) Targeted sequencing of 151 patients with advanced, treatment resistant head and neck tumors TRUE FALSE
ccrcc_utokyo_2013 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. FALSE FALSE
nccrcc_genentech_2014 Renal Non-Clear Cell Carcinoma (Genentech, Nat Genet 2014) 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. TRUE TRUE
rbl_cfdna_msk_2020 Retinoblastoma cfDNA (MSKCC 2020) Cell-free DNA profiling in 14 retinoblastoma patients with advanced intraocular disease: An MSKCC experience FALSE TRUE
mrt_bcgsc_2016 Rhabdoid Cancer (BCGSC, Cancer Cell 2016) Whole-genome sequencing of tumor-normal sample pairs from 40 patients with Malignant Rhabdoid Cancer. TRUE FALSE
rms_nih_2014 Rhabdomyosarcoma (NIH, Cancer Discov 2014) Whole-genome or whole-exome sequencing of 43 rhabdomyosarcoma tumor/normal pairs. TRUE TRUE
summit_2018 SUMMIT - Neratinib Basket Study (Multi-Institute, Nature 2018) MSK-IMPACT sequencing of 86 patients with HER2- and HER3-mutant cancers TRUE TRUE
sarc_mskcc 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. FALSE TRUE
sarc_tcga Sarcoma (TCGA, Firehose Legacy) TCGA Sarcoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/SARC/20160128/ TRUE TRUE
sarc_tcga_pan_can_atlas_2018 Sarcoma (TCGA, PanCancer Atlas) Sarcoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
skcm_broad Skin Cutaneous Melanoma (Broad, Cell 2012) Whole-exome sequencing of 121 melanoma samples with matched normals. TRUE TRUE
skcm_tcga Skin Cutaneous Melanoma (TCGA, Firehose Legacy) TCGA Skin Cutaneous Melanoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/SKCM/20160128/ TRUE TRUE
skcm_tcga_pan_can_atlas_2018 Skin Cutaneous Melanoma (TCGA, PanCancer Atlas) Skin Cutaneous Melanoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
skcm_yale Skin Cutaneous Melanoma (Yale, Nat Genet 2012) Exome sequencing of 147 melanoma samples with 99 matched normals. TRUE TRUE
skcm_broad_brafresist_2012 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. TRUE TRUE
scco_mskcc Small Cell Carcinoma of the Ovary (MSKCC, Nat Genet 2014) Targeted sequencing of 12 SCCO paired tumor and normal samples. TRUE TRUE
sclc_clcgp 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. TRUE TRUE
sclc_jhu 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 tumors and 23 SCLC cell lines without matched normal controls. TRUE FALSE
sclc_ucologne_2015 Small Cell Lung Cancer (U Cologne, Nature 2015) Whole-genome sequencing of 120 small cell lung cancer(SCLC) tumour samples and matched normal material. FALSE TRUE
sclc_cancercell_gardner_2017 Small-Cell Lung Cancer (Multi-Institute, Cancer Cell 2017) Whole Exome Sequencing of 10 paired chemosensitive and chemoresistant SCLC PDX. FALSE TRUE
vsc_cuk_2018 Squamous Cell Carcinoma of the Vulva (CUK, Exp Mol Med 2018) Whole exome sequencing of tumor/normal pairs from 15 vulvar squamous cell carcinomas. TRUE TRUE
stad_pfizer_uhongkong 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. TRUE TRUE
stad_tcga Stomach Adenocarcinoma (TCGA, Firehose Legacy) TCGA Stomach Adenocarcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/STAD/20160128/ TRUE TRUE
stad_tcga_pub 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/ FALSE FALSE
stad_tcga_pan_can_atlas_2018 Stomach Adenocarcinoma (TCGA, PanCancer Atlas) Stomach Adenocarcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
stad_utokyo 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. TRUE TRUE
stad_uhongkong Stomach Adenocarcinoma (UHK, Nat Genet 2011) Exome sequencing of 22 gastric cancer samples with matched normals. TRUE TRUE
tmb_mskcc_2018 TMB and Immunotherapy (MSKCC, 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. TRUE TRUE
tgct_tcga Testicular Germ Cell Cancer (TCGA, Firehose Legacy) TCGA Testicular Germ Cell Cancer. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/TGCT/20160128/ TRUE TRUE
tgct_tcga_pan_can_atlas_2018 Testicular Germ Cell Tumors (TCGA, PanCancer Atlas) Testicular Germ Cell Tumors TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
angs_painter_2020 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 patients subjected to WES (along with matched germline WES). This study includes genomic data, patient-reported data (pre-pended as PRD), medical record data (MedR), and pathology report data (PATH). As these data were generated in a research laboratory, not a clinical laboratory, they are for research purposes only and cannot be used to inform clinical decision-making. For questions about these data, including how to cite, please visit www.ascproject.org/data-release or direct questions to . FALSE TRUE
angs_project_painter_2018 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 angiosarcoma patients. Angiosarcoma tumor specimens (FFPE) were subjected to whole-exome sequencing (along with matched germline whole-exome sequencing). In addition to genomic data, this study includes patient-reported data (pre-pended as PRD), medical record data (MedR), and pathology report data (PATH). All annotations have been de-identified. Questions about these data can be directed to . FALSE TRUE
brca_mbcproject_wagle_2017 The Metastatic Breast Cancer Project (Provisional, February 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 180 patients who developed metastatic breast cancer. 237 samples have undergone whole-exome sequencing (along with matched germline whole-exome sequencing) and 146 of those samples have also undergone RNA-sequencing. This study includes genomic data, patient-reported data (prepended as PRD), medical record data (MedR), and pathology report data (PATH). All annotations have been de-identified. As these data were generated in a research laboratory, not a clinical laboratory, they are for research purposes only and cannot be used to inform clinical decision-making. For questions about these data, including how to cite, please visit www.mbcproject.org/data-release or direct questions to . FALSE TRUE
prad_mpcproject_2018 The Metastatic Prostate Cancer Project (Provisional, November 2019) 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 report data (PATH). As these data were generated in a research, not a clinical, laboratory, they are for research purposes only and cannot be used to inform clinical decision-making. All annotations have been de-identified. More information is available at www.mpcproject.org. For questions about these data, including how to cite, please visit www.mpcproject.org/data-release or direct questions to . FALSE TRUE
lung_msk_pdx Thoracic PDX (MSK, Provisional) Targeted sequencing of thoracic PDX lines to characterize genetic alterations in 138 tumor/normal pairs via MSK-IMPACT. Data generated in Charles Rudin Lab. FALSE TRUE
tet_nci_2014 Thymic Epithelial Tumors (NCI, Nat Genet 2014) Whole exome sequencing of 28 thymic epithelial tumors (TETs) with matched normals TRUE FALSE
thym_tcga Thymoma (TCGA, Firehose Legacy) TCGA Thymoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/THYM/20160128/ TRUE TRUE
thym_tcga_pan_can_atlas_2018 Thymoma (TCGA, PanCancer Atlas) Thymoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
thca_tcga Thyroid Carcinoma (TCGA, Firehose Legacy) TCGA Thyroid Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/THCA/20160128/ TRUE TRUE
thca_tcga_pan_can_atlas_2018 Thyroid Carcinoma (TCGA, PanCancer Atlas) Thyroid Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
ntrk_msk_2019 Tumors with TRK fusions (MSK, Clin Cancer Res 2020) Tumors with TRK fusions based on MSK-IMPACT targeted sequencing. FALSE TRUE
urcc_mskcc_2016 Unclassified Renal Cell Carcinoma (MSK, Nature 2016) Targeted sequencing of 62 high-grade primary Unclassified Renal Cell Carcinoma tumor samples with matched normals. TRUE TRUE
utuc_mskcc_2015 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. TRUE TRUE
utuc_cornell_baylor_mdacc_2019 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. TRUE TRUE
utuc_igbmc_2021 Upper Tract Urothelial Carcinoma (IGBMC, Genome Biology 2021) Whole-exome sequencing of 30 upper-tract urothelial carcinoma patients and their matched normals. FALSE TRUE
utuc_msk_2019 Upper Tract Urothelial Carcinoma (MSK, Nat Commun 2020) Targeted Sequencing of 119 upper tract urothelial carcinoma tumor/normal pairs. TRUE TRUE
utuc_pdx_msk_2019 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. TRUE TRUE
blca_cornell_2016 Urothelial Carcinoma (Cornell/Trento, Nat Gen 2016) Whole-exome sequencing of 72 tumor samples (with 32 matched normals) in Urothelial Carcinoma. TRUE TRUE
ucs_jhu_2014 Uterine Carcinosarcoma (Johns Hopkins, Nat Commun 2014) Whole exome sequencing (WXS) of 22 uterine carcinosarcoma/uterine malignant mixed Mullerian (UCS) tumors with matched normals. http://www.nature.com/ncomms/2014/140919/ncomms6006/extref/ncomms6006-s1.pdf TRUE TRUE
ucs_tcga Uterine Carcinosarcoma (TCGA, Firehose Legacy) TCGA Uterine Carcinosarcoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UCS/20160128/ TRUE TRUE
ucs_tcga_pan_can_atlas_2018 Uterine Carcinosarcoma (TCGA, PanCancer Atlas) Uterine Carcinosarcoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE
uccc_nih_2017 Uterine Clear Cell Carcinoma (NIH, Cancer 2017) Whole exome sequencing of paired tumor-normal DNAs from 16 cases of clear cell endometrial tumors. TRUE TRUE
ucec_tcga Uterine Corpus Endometrial Carcinoma (TCGA, Firehose Legacy) TCGA Uterine Corpus Endometrial Carcinoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UCEC/20160128/ TRUE TRUE
ucec_tcga_pub 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/ FALSE TRUE
ucec_tcga_pan_can_atlas_2018 Uterine Corpus Endometrial Carcinoma (TCGA, PanCancer Atlas) Uterine Corpus Endometrial Carcinoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE TRUE
usarc_msk_2020 Uterine Sarcoma/Mesenchymal (MSK, Clin Cancer Res 2020) Targeted Sequencing of 108 Uterine Sarcoma/Mesenchymal tumor/normal pairs from 107 patients. TRUE TRUE
um_qimr_2016 Uveal Melanoma (QIMR, Oncotarget 2016) Whole-genome or whole-exome sequencing of tumor/normal pairs from 28 uveal melanoma samples. FALSE TRUE
uvm_tcga Uveal Melanoma (TCGA, Firehose Legacy) TCGA Uveal Melanoma. Source data from GDAC Firehose. Previously known as TCGA Provisional. http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UVM/20160128/ TRUE TRUE
uvm_tcga_pan_can_atlas_2018 Uveal Melanoma (TCGA, PanCancer Atlas) Uveal melanoma TCGA PanCancer data. The original data is here. The publications are here. https://gdc.cancer.gov/about-data/publications/pancanatlas, https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html TRUE FALSE