Running examples in ‘cgdsr-Ex.R’ failed
The error most likely occurred in:

> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: cgdsr-getCancerStudies
> ### Title: Get available cancer studies available in CGDS
> ### Aliases: cgdsr-getCancerStudies getCancerStudies getCancerStudies.CGDS
> 
> ### ** Examples
> 
> # Create CGDS object
> mycgds = CGDS("http://www.cbioportal.org/")
> 
> getCancerStudies(mycgds)
                     cancer_study_id
1                      paac_jhu_2014
2                    all_stjude_2015
3                    all_stjude_2016
4                      laml_tcga_pub
5       laml_tcga_pan_can_atlas_2018
6                          laml_tcga
7                      acyc_fmi_2014
8                      acyc_mda_2015
9                      acyc_mgh_2016
10                   acyc_mskcc_2013
11                  acyc_sanger_2013
12                   acbc_mskcc_2015
13       acc_tcga_pan_can_atlas_2018
14                          acc_tcga
15                    ampca_bcm_2016
16             blca_mskcc_solit_2014
17             blca_mskcc_solit_2012
18      blca_plasmacytoid_mskcc_2016
19                blca_tcga_pub_2017
20                          blca_bgi
21           blca_dfarber_mskcc_2014
22                     blca_tcga_pub
23      blca_tcga_pan_can_atlas_2018
24                         blca_tcga
25       lgg_tcga_pan_can_atlas_2018
26                          lgg_tcga
27                     brca_metabric
28                   breast_msk_2018
29                 bfn_duke_nus_2015
30                        brca_bccrc
31                        brca_broad
32                       brca_sanger
33                 brca_tcga_pub2015
34                     brca_tcga_pub
35      brca_tcga_pan_can_atlas_2018
36                         brca_tcga
37         brca_bccrc_xenograft_2014
38               cellline_ccle_broad
39      cesc_tcga_pan_can_atlas_2018
40                         cesc_tcga
41                     chol_msk_2018
42                    chol_nccs_2013
43                     chol_nus_2012
44      chol_tcga_pan_can_atlas_2018
45                         chol_tcga
46                   lcll_broad_2013
47                    cll_iuopa_2015
48                  cllsll_icgc_2011
49                 ccrcc_utokyo_2013
50                coadread_dfci_2016
51                coadread_genentech
52                 coadread_tcga_pub
53  coadread_tcga_pan_can_atlas_2018
54                     coadread_tcga
55                    coadread_mskcc
56                 cscc_dfarber_2015
57                cscc_hgsc_bcm_2014
58                ctcl_columbia_2015
59                     pact_jhu_2011
60                   desm_broad_2015
61                   dlbcl_dfci_2018
62                   dlbc_broad_2012
63                   dlbcl_duke_2017
64      dlbc_tcga_pan_can_atlas_2018
65                    nhl_bcgsc_2013
66                     ucec_msk_2018
67                        esca_broad
68      esca_tcga_pan_can_atlas_2018
69                         esca_tcga
70                         escc_icgc
71                    escc_ucla_2014
72                   es_iocurie_2014
73                 gbc_shanghai_2014
74                   egc_tmucih_2015
75                  nsclc_unito_2016
76                    prad_cpcg_2017
77                      gct_msk_2016
78                  gbm_tcga_pub2013
79                      gbm_tcga_pub
80       gbm_tcga_pan_can_atlas_2018
81                          gbm_tcga
82                   glioma_msk_2018
83                        hnsc_broad
84                          hnsc_jhu
85                     hnsc_tcga_pub
86      hnsc_tcga_pan_can_atlas_2018
87                         hnsc_tcga
88               liad_inserm_fr_2014
89                hcc_mskimpact_2018
90                hcc_inserm_fr_2015
91                   all_stjude_2013
92               panet_shanghai_2013
93                     chol_jhu_2013
94                     kich_tcga_pub
95      kich_tcga_pan_can_atlas_2018
96                         kich_tcga
97                          kirc_bgi
98                    ccrcc_irc_2014
99                     kirc_tcga_pub
100     kirc_tcga_pan_can_atlas_2018
101                        kirc_tcga
102     kirp_tcga_pan_can_atlas_2018
103                        kirp_tcga
104                     lihc_amc_prv
105                       lihc_riken
106     lihc_tcga_pan_can_atlas_2018
107                        lihc_tcga
108                    lgg_ucsf_2014
109                       luad_broad
110                  luad_mskcc_2015
111                    luad_tcga_pub
112     luad_tcga_pan_can_atlas_2018
113                        luad_tcga
114                         luad_tsp
115                    lusc_tcga_pub
116     lusc_tcga_pan_can_atlas_2018
117                        lusc_tcga
118                        dlbc_tcga
119                     lung_msk_pdx
120                  msk_impact_2017
121                    lung_msk_2017
122                  prad_mskcc_2017
123                 mixed_allen_2018
124                      mpnst_mskcc
125                  plmeso_nyu_2015
126                 mcl_idibips_2013
127                   mbl_broad_2012
128                         mbl_icgc
129                         mbl_pcgp
130                mbl_sickkids_2016
131               skcm_broad_dfarber
132                  lgggbm_tcga_pub
133     meso_tcga_pan_can_atlas_2018
134                        meso_tcga
135                     crc_msk_2017
136                     egc_msk_2017
137                        prad_mich
138                   prad_su2c_2015
139                         mm_broad
140                    brca_igr_2015
141                   mds_tokyo_2011
142                   cellline_nci60
143                     odg_msk_2017
144                  npc_nusingapore
145                     nbl_amc_2012
146                   nbl_broad_2013
147                nbl_ucologne_2015
148                    nepc_wcm_2016
149       skcm_vanderbilt_mskcc_2015
150                   nhl_bcgsc_2011
151               nsclc_pd1_msk_2018
152                  blca_nmibc_2017
153             hnsc_mdanderson_2013
154                      ov_tcga_pub
155       ov_tcga_pan_can_atlas_2018
156                          ov_tcga
157              mel_tsam_liang_2017
158            nsclc_tcga_broad_2016
159                        paad_icgc
160                paad_qcmg_uq_2016
161     paad_tcga_pan_can_atlas_2018
162                        paad_tcga
163                   paad_utsw_2015
164                   panet_jhu_2011
165                    thca_tcga_pub
166       all_phase2_target_2018_pub
167              aml_target_2018_pub
168            es_dfarber_broad_2014
169                mixed_pipseq_2017
170              nbl_target_2018_pub
171              pediatric_dkfz_2017
172               rt_target_2018_pub
173               wt_target_2018_pub
174     pcpg_tcga_pan_can_atlas_2018
175                        pcpg_tcga
176               thyroid_mskcc_2016
177                  pcnsl_mayo_2015
178                  prad_broad_2013
179                       prad_broad
180                prad_eururol_2017
181                       prad_fhcrc
182                       prad_mskcc
183                       prad_p1000
184                    prad_tcga_pub
185     prad_tcga_pan_can_atlas_2018
186                        prad_tcga
187                  prad_mskcc_2014
188 prad_mskcc_cheny1_organoids_2014
189                   hnc_mskcc_2016
190            nccrcc_genentech_2014
191                   mrt_bcgsc_2016
192                     rms_nih_2014
193                      summit_2018
194                       sarc_mskcc
195     sarc_tcga_pan_can_atlas_2018
196                        sarc_tcga
197                       skcm_broad
198     skcm_tcga_pan_can_atlas_2018
199                        skcm_tcga
200                        skcm_yale
201       skcm_broad_brafresist_2012
202                       scco_mskcc
203                       sclc_clcgp
204                         sclc_jhu
205               sclc_ucologne_2015
206     sclc_cancercell_gardner_2017
207                     vsc_cuk_2018
208            stad_pfizer_uhongkong
209                    stad_tcga_pub
210     stad_tcga_pan_can_atlas_2018
211                        stad_tcga
212                      stad_utokyo
213                   stad_uhongkong
214                    stes_tcga_pub
215                   tmb_mskcc_2018
216                  urcc_mskcc_2016
217                  utuc_mskcc_2013
218                        tgct_tcga
219     tgct_tcga_pan_can_atlas_2018
220        angs_project_painter_2018
221       brca_mbcproject_wagle_2017
222                     tet_nci_2014
223     thym_tcga_pan_can_atlas_2018
224                        thym_tcga
225     thca_tcga_pan_can_atlas_2018
226                        thca_tcga
227                blca_cornell_2016
228                     ucs_jhu_2014
229      ucs_tcga_pan_can_atlas_2018
230                         ucs_tcga
231                    uccc_nih_2017
232                    ucec_tcga_pub
233     ucec_tcga_pan_can_atlas_2018
234                        ucec_tcga
235                     um_qimr_2016
236      uvm_tcga_pan_can_atlas_2018
237                         uvm_tcga
238                panet_arcnet_2017
239                   skcm_ucla_2016
240        past_dkfz_heidelberg_2013
241            hcc_msk_venturaa_2018
                                                                                                                name
1                                               Acinar Cell Carcinoma of the Pancreas (Johns Hopkins, J Pathol 2014)
2                                                             Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2015)
3                                                             Acute Lymphoblastic Leukemia (St Jude, Nat Genet 2016)
4                                                                           Acute Myeloid Leukemia (TCGA, NEJM 2013)
5                                                                     Acute Myeloid Leukemia (TCGA, PanCancer Atlas)
6                                                                         Acute Myeloid Leukemia (TCGA, Provisional)
7                                                              Adenoid Cystic Carcinoma (FMI, Am J Surg Pathl. 2014)
8                                                               Adenoid Cystic Carcinoma (MDA, Clin Cancer Res 2015)
9                                                                       Adenoid Cystic Carcinoma (MGH, Nat Gen 2016)
10                                                                  Adenoid Cystic Carcinoma (MSKCC, Nat Genet 2013)
11                                                                   Adenoid Cystic Carcinoma (Sanger/MDA, JCI 2013)
12                                                    Adenoid Cystic Carcinoma of the Breast (MSKCC, J Pathol. 2015)
13                                                                  Adrenocortical Carcinoma (TCGA, PanCancer Atlas)
14                                                                      Adrenocortical Carcinoma (TCGA, Provisional)
15                                               Ampullary Carcinoma (Baylor College of Medicine, Cell Reports 2016)
16                                                                             Bladder Cancer (MSKCC, Eur Urol 2014)
17                                                                                  Bladder Cancer (MSKCC, JCO 2013)
18                                                                            Bladder Cancer (MSKCC, Nat Genet 2016)
19                                                                                  Bladder Cancer (TCGA, Cell 2017)
20                                                                Bladder Urothelial Carcinoma (BGI, Nat Genet 2013)
21                                            Bladder Urothelial Carcinoma (Dana Farber & MSKCC, Cancer Discov 2014)
22                                                                  Bladder Urothelial Carcinoma (TCGA, Nature 2014)
23                                                              Bladder Urothelial Carcinoma (TCGA, PanCancer Atlas)
24                                                                  Bladder Urothelial Carcinoma (TCGA, Provisional)
25                                                                  Brain Lower Grade Glioma (TCGA, PanCancer Atlas)
26                                                                      Brain Lower Grade Glioma (TCGA, Provisional)
27                                                           Breast Cancer (METABRIC, Nature 2012 & Nat Commun 2016)
28                                                                             Breast Cancer (MSK, Cancer Cell 2018)
29                                                          Breast Fibroepithelial Tumors (Duke-NUS, Nat Genet 2015)
30                                                         Breast Invasive Carcinoma (British Columbia, Nature 2012)
31                                                                    Breast Invasive Carcinoma (Broad, Nature 2012)
32                                                                   Breast Invasive Carcinoma (Sanger, Nature 2012)
33                                                                       Breast Invasive Carcinoma (TCGA, Cell 2015)
34                                                                     Breast Invasive Carcinoma (TCGA, Nature 2012)
35                                                                 Breast Invasive Carcinoma (TCGA, PanCancer Atlas)
36                                                                     Breast Invasive Carcinoma (TCGA, Provisional)
37                                                  Breast cancer patient xenografts (British Columbia, Nature 2014)
38                                                       Cancer Cell Line Encyclopedia (Novartis/Broad, Nature 2012)
39                                                          Cervical Squamous Cell Carcinoma (TCGA, PanCancer Atlas)
40                              Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma (TCGA, Provisional)
41                                                                    Cholangiocarcinoma (MSK, Clin Cancer Res 2018)
42                                          Cholangiocarcinoma (National Cancer Centre of Singapore, Nat Genet 2013)
43                                             Cholangiocarcinoma (National University of Singapore, Nat Genet 2012)
44                                                                        Cholangiocarcinoma (TCGA, PanCancer Atlas)
45                                                                            Cholangiocarcinoma (TCGA, Provisional)
46                                                                   Chronic Lymphocytic Leukemia (Broad, Cell 2013)
47                                                                 Chronic Lymphocytic Leukemia (IUOPA, Nature 2015)
48                                                         Chronic lymphocytic leukemia (ICGC, Nature Genetics 2011)
49                                                         Clear Cell Renal Cell Carcinoma (U Tokyo, Nat Genet 2013)
50                                                               Colorectal Adenocarcinoma (DFCI, Cell Reports 2016)
51                                                                Colorectal Adenocarcinoma (Genentech, Nature 2012)
52                                                                     Colorectal Adenocarcinoma (TCGA, Nature 2012)
53                                                                 Colorectal Adenocarcinoma (TCGA, PanCancer Atlas)
54                                                                     Colorectal Adenocarcinoma (TCGA, Provisional)
55                                                      Colorectal Adenocarcinoma Triplets (MSKCC, Genome Biol 2014)
56                                                    Cutaneous Squamous Cell Carcinoma (DFCI, Clin Cancer Res 2015)
57                                             Cutaneous Squamous Cell Carcinoma (MD Anderson, Clin Cancer Res 2014)
58                                                            Cutaneous T Cell Lymphoma (Columbia U, Nat Genet 2015)
59                                                            Cystic Tumor of the Pancreas (Johns Hopkins, PNAS 2011
60                                                           Desmoplastic Melanoma (Broad Institute, Nat Genet 2015)
61                                                                Diffuse Large B cell Lymphoma (DFCI, Nat Med 2018)
62                                                                  Diffuse Large B-Cell Lymphoma (Broad, PNAS 2012)
63                                                                   Diffuse Large B-Cell Lymphoma (Duke, Cell 2017)
64                                                             Diffuse Large B-Cell Lymphoma (TCGA, PanCancer Atlas)
65                                                                 Diffuse Large B-cell Lymphoma (BCGSC, Blood 2013)
66                                                                                    Endometrial Cancer (MSK, 2018)
67                                                                 Esophageal Adenocarcinoma (Broad, Nat Genet 2013)
68                                                                 Esophageal Adenocarcinoma (TCGA, PanCancer Atlas)
69                                                                          Esophageal Carcinoma (TCGA, Provisional)
70                                                            Esophageal Squamous Cell Carcinoma (ICGC, Nature 2014)
71                                                         Esophageal Squamous Cell Carcinoma (UCLA, Nat Genet 2014)
72                                                                Ewing Sarcoma (Institut Cuire, Cancer Discov 2014)
73                                                                  Gallbladder Carcinoma (Shanghai, Nat Genet 2014)
74                                                                        Gastric Adenocarcinoma (TMUCIH, PNAS 2015)
75                   Genetic Characterization of NSCLC young adult patients ( University of Turin, Lung Cancer 2016)
76                                              Genomic Hallmarks of Prostate Adenocarcinoma (CPC-GENE, Nature 2017)
77                                       Genomic Profile of Patients with Advanced Germ Cell Tumors (MSK, JCO 2016).
78                                                                                    Glioblastoma (TCGA, Cell 2013)
79                                                                                  Glioblastoma (TCGA, Nature 2008)
80                                                                   Glioblastoma Multiforme (TCGA, PanCancer Atlas)
81                                                                       Glioblastoma Multiforme (TCGA, Provisional)
82                                                                                                Glioma (MSK, 2018)
83                                                       Head and Neck Squamous Cell Carcinoma (Broad, Science 2011)
84                                               Head and Neck Squamous Cell Carcinoma (Johns Hopkins, Science 2011)
85                                                         Head and Neck Squamous Cell Carcinoma (TCGA, Nature 2015)
86                                                     Head and Neck Squamous Cell Carcinoma (TCGA, PanCancer Atlas)
87                                                         Head and Neck Squamous Cell Carcinoma (TCGA, Provisional)
88                                                                 Hepatocellular Adenoma (Inserm, Cancer Cell 2014)
89                                                              Hepatocellular Carcinoma (MSK, Clin Cancer Res 2018)
90                                                                Hepatocellular Carcinomas (Inserm, Nat Genet 2015)
91                                                     Hypodiploid Acute Lymphoid Leukemia (St Jude, Nat Genet 2013)
92                                                                            Insulinoma (Shanghai, Nat Commun 2013)
93                                        Intrahepatic Cholangiocarcinoma (Johns Hopkins University, Nat Genet 2013)
94                                                                       Kidney Chromophobe (TCGA, Cancer Cell 2014)
95                                                                        Kidney Chromophobe (TCGA, PanCancer Atlas)
96                                                                            Kidney Chromophobe (TCGA, Provisional)
97                                                           Kidney Renal Clear Cell Carcinoma (BGI, Nat Genet 2012)
98                                                           Kidney Renal Clear Cell Carcinoma (IRC, Nat Genet 2014)
99                                                             Kidney Renal Clear Cell Carcinoma (TCGA, Nature 2013)
100                                                        Kidney Renal Clear Cell Carcinoma (TCGA, PanCancer Atlas)
101                                                            Kidney Renal Clear Cell Carcinoma (TCGA, Provisional)
102                                                    Kidney Renal Papillary Cell Carcinoma (TCGA, PanCancer Atlas)
103                                                        Kidney Renal Papillary Cell Carcinoma (TCGA, Provisional)
104                                                            Liver Hepatocellular Carcinoma (AMC, Hepatology 2014)
105                                                           Liver Hepatocellular Carcinoma (RIKEN, Nat Genet 2012)
106                                                           Liver Hepatocellular Carcinoma (TCGA, PanCancer Atlas)
107                                                               Liver Hepatocellular Carcinoma (TCGA, Provisional)
108                                                                          Low-Grade Gliomas (UCSF, Science 2014).
109                                                                           Lung Adenocarcinoma (Broad, Cell 2012)
110                                                                                 Lung Adenocarcinoma (MSKCC 2015)
111                                                                          Lung Adenocarcinoma (TCGA, Nature 2014)
112                                                                      Lung Adenocarcinoma (TCGA, PanCancer Atlas)
113                                                                          Lung Adenocarcinoma (TCGA, Provisional)
114                                                                           Lung Adenocarcinoma (TSP, Nature 2008)
115                                                                 Lung Squamous Cell Carcinoma (TCGA, Nature 2012)
116                                                             Lung Squamous Cell Carcinoma (TCGA, PanCancer Atlas)
117                                                                 Lung Squamous Cell Carcinoma (TCGA, Provisional)
118                                              Lymphoid Neoplasm Diffuse Large B-cell Lymphoma (TCGA, Provisional)
119                                                                              MSK Thoracic PDX (MSK, Provisional)
120                                                      MSK-IMPACT Clinical Sequencing Cohort (MSKCC, Nat Med 2017)
121                     MSK-IMPACT Clinical Sequencing Cohort for Non-Small Cell Cancer (MSK, Cancer Discovery 2017)
122                      MSK-IMPACT Clinical Sequencing Cohort in Prostate Cancer (MSK, JCO Precision Oncology 2017)
123                                                                         MSS Mixed Solid Tumors (Van Allen, 2018)
124                                                  Malignant Peripheral Nerve Sheath Tumor (MSKCC, Nat Genet 2014)
125                                                            Malignant Pleural Mesothelioma (NYU, Cancer Res 2015)
126                                                                        Mantle Cell Lymphoma (IDIBIPS, PNAS 2013)
127                                                                             Medulloblastoma (Broad, Nature 2012)
128                                                                              Medulloblastoma (ICGC, Nature 2012)
129                                                                              Medulloblastoma (PCGP, Nature 2012)
130                                                                          Medulloblastoma (Sickkids, Nature 2016)
131                                                                        Melanoma (Broad/Dana Farber, Nature 2012)
132                                                                   Merged Cohort of LGG and GBM (TCGA, Cell 2016)
133                                                                             Mesothelioma (TCGA, PanCancer Atlas)
134                                                                                 Mesothelioma (TCGA, Provisional)
135                                                           Metastatic Colorectal Cancer (MSKCC, Cancer Cell 2018)
136                                                 Metastatic Esophagogastric Cancer (MSKCC, Cancer Discovery 2017)
137                                                           Metastatic Prostate Adenocarcinoma (MCTP, Nature 2012)
138                                                      Metastatic Prostate Cancer (SU2C/PCF Dream Team, Cell 2015)
139                                                                       Multiple Myeloma (Broad, Cancer Cell 2014)
140                                                   Mutational profiles of metastatic breast cancer (France, 2016)
141                                                                              Myelodysplasia (Tokyo, Nature 2011)
142                                                                        NCI-60 Cell Lines (NCI, Cancer Res. 2012)
143              NGS in Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytomas tumors (MSK, Neuro Oncol 2017)
144                                                             Nasopharyngeal Carcinoma (Singapore, Nat Genet 2014)
145                                                                       Neuroblastoma (AMC Amsterdam, Nature 2012)
146                                                                             Neuroblastoma (Broad Institute 2013)
147                                                                            Neuroblastoma (Broad, Nat Genet 2013)
148                                              Neuroendocrine Prostate Cancer (Trento/Cornell/Broad, Nat Med 2016)
149 Next generation sequencing (NGS) of pre-treatment metastatic melanoma samples (MSK, JCO Precision Oncology 2017)
150                                                                        Non-Hodgkin Lymphoma (BCGSC, Nature 2011)
151                                                                       Non-Small Cell Lung Cancer (MSK, JCO 2018)
152                                                            Nonmuscle Invasive Bladder Cancer (MSK Eur Urol 2017)
153                                                   Oral Squamous Cell Carcinoma (MD Anderson, Cancer Discov 2013)
154                                                            Ovarian Serous Cystadenocarcinoma (TCGA, Nature 2011)
155                                                        Ovarian Serous Cystadenocarcinoma (TCGA, PanCancer Atlas)
156                                                            Ovarian Serous Cystadenocarcinoma (TCGA, Provisional)
157                                                Paired-exome sequencing of acral melanoma (TGEN, Genome Res 2017)
158                                                                           Pan-Lung Cancer (TCGA, Nat Genet 2016)
159                                                                    Pancreatic Adenocarcinoma (ICGC, Nature 2012)
160                                                                    Pancreatic Adenocarcinoma (QCMG, Nature 2016)
161                                                                Pancreatic Adenocarcinoma (TCGA, PanCancer Atlas)
162                                                                    Pancreatic Adenocarcinoma (TCGA, Provisional)
163                                                                        Pancreatic Cancer (UTSW, Nat Commun 2015)
164                                        Pancreatic Neuroendocrine Tumors (Johns Hopkins University, Science 2011)
165                                                                    Papillary Thyroid Carcinoma (TCGA, Cell 2014)
166                                                      Pediatric Acute Lymphoid Leukemia - Phase II (TARGET, 2018)
167                                                                  Pediatric Acute Myeloid Leukemia (TARGET, 2018)
168                                                               Pediatric Ewing Sarcoma (DFCI, Cancer Discov 2014)
169                                                                            Pediatric Mixed Tumors (PIP-Seq 2017)
170                                                                           Pediatric Neuroblastoma (TARGET, 2018)
171                                                    Pediatric Pan-Cancer (DKFZ - German Cancer Consortium,  2017)
172                                                                          Pediatric Rhabdoid Tumor (TARGET, 2018)
173                                                                            Pediatric Wilms' Tumor (TARGET, 2018)
174                                                       Pheochromocytoma and Paraganglioma (TCGA, PanCancer Atlas)
175                                                           Pheochromocytoma and Paraganglioma (TCGA, Provisional)
176                                           Poorly-Differentiated and Anaplastic Thyroid Cancers (MSKCC, JCI 2016)
177                                      Primary Central Nervous System Lymphoma (Mayo Clinic, Clin Cancer Res 2015)
178                                                               Prostate Adenocarcinoma (Broad/Cornell, Cell 2013)
179                                                          Prostate Adenocarcinoma (Broad/Cornell, Nat Genet 2012)
180                                                                          Prostate Adenocarcinoma (EurUrol, 2017)
181                                                      Prostate Adenocarcinoma (Fred Hutchinson CRC, Nat Med 2016)
182                                                                Prostate Adenocarcinoma (MSKCC, Cancer Cell 2010)
183                                                       Prostate Adenocarcinoma (MSKCC/DFCI, Nature Genetics 2018)
184                                                                        Prostate Adenocarcinoma (TCGA, Cell 2015)
185                                                                  Prostate Adenocarcinoma (TCGA, PanCancer Atlas)
186                                                                      Prostate Adenocarcinoma (TCGA, Provisional)
187                                                             Prostate Adenocarcinoma CNA study (MSKCC, PNAS 2014)
188                                                             Prostate Adenocarcinoma Organoids (MSKCC, Cell 2014)
189                                             Recurrent and Metastatic Head & Neck Cancer (MSKCC, JAMA Oncol 2016)
190                                                       Renal Non-Clear Cell Carcinoma (Genentech, Nat Genet 2014)
191                                                                        Rhabdoid Cancer (BCGSC, Cancer Cell 2016)
192                                                                       Rhabdomyosarcoma (NIH, Cancer Discov 2014)
193                                                                                            SUMMIT (Nature, 2018)
194                                                                            Sarcoma (MSKCC/Broad, Nat Genet 2010)
195                                                                                  Sarcoma (TCGA, PanCancer Atlas)
196                                                                                      Sarcoma (TCGA, Provisional)
197                                                                       Skin Cutaneous Melanoma (Broad, Cell 2012)
198                                                                  Skin Cutaneous Melanoma (TCGA, PanCancer Atlas)
199                                                                      Skin Cutaneous Melanoma (TCGA, Provisional)
200                                                                   Skin Cutaneous Melanoma (Yale, Nat Genet 2012)
201                                                               Skin Cutaneous Melanoma(Broad, Cancer Discov 2014)
202                                                        Small Cell Carcinoma of the Ovary (MSKCC, Nat Genet 2014)
203                                                                   Small Cell Lung Cancer (CLCGP, Nat Genet 2012)
204                                                           Small Cell Lung Cancer (Johns Hopkins, Nat Genet 2012)
205                                                                  Small Cell Lung Cancer (U Cologne, Nature 2015)
206                                                                    Small-Cell Lung Cancer (Multi-Institute 2017)
207                                                     Squamous Cell Carcinoma of the Vulva (CUK, Exp Mol Med 2018)
208                                                          Stomach Adenocarcinoma (Pfizer and UHK, Nat Genet 2014)
209                                                                       Stomach Adenocarcinoma (TCGA, Nature 2014)
210                                                                   Stomach Adenocarcinoma (TCGA, PanCancer Atlas)
211                                                                       Stomach Adenocarcinoma (TCGA, Provisional)
212                                                                 Stomach Adenocarcinoma (U Tokyo, Nat Genet 2014)
213                                                                     Stomach Adenocarcinoma (UHK, Nat Genet 2011)
214                                                      TCGA data for Esophagus-Stomach Cancers (TCGA, Nature 2017)
215                                                                    TMB and Immunotherapy (MSKCC, Nat Genet 2019)
216           Targeted gene sequencing in 62 high-grade primary Unclassified Renal Cell Carcinoma (MSK, Nature 2016)
217                                Targeted sequencing of upper tract urothelial cancer samples (MSK, Eur Urol 2013)
218                                                                  Testicular Germ Cell Cancer (TCGA, Provisional)
219                                                              Testicular Germ Cell Tumors (TCGA, PanCancer Atlas)
220                                                           The Angiosarcoma Project (Provisional, September 2018)
221                                                 The Metastatic Breast Cancer Project (Provisional, October 2018)
222                                                                   Thymic Epithelial Tumors (NCI, Nat Genet 2014)
223                                                                                  Thymoma (TCGA, PanCancer Atlas)
224                                                                                      Thymoma (TCGA, Provisional)
225                                                                        Thyroid Carcinoma (TCGA, PanCancer Atlas)
226                                                                            Thyroid Carcinoma (TCGA, Provisional)
227                                                              Urothelial Carcinoma (Cornell/Trento, Nat Gen 2016)
228                                               Uterine Carcinosarcoma (Johns Hopkins University, Nat Commun 2014)
229                                                                   Uterine Carcinosarcoma (TCGA, PanCancer Atlas)
230                                                                       Uterine Carcinosarcoma (TCGA, Provisional)
231                                                                  Uterine Clear Cell Carcinoma (NIH, Cancer 2017)
232                                                         Uterine Corpus Endometrial Carcinoma (TCGA, Nature 2013)
233                                                     Uterine Corpus Endometrial Carcinoma (TCGA, PanCancer Atlas)
234                                                         Uterine Corpus Endometrial Carcinoma (TCGA, Provisional)
235                                                                           Uveal Melanoma (QIMR, Oncotarget 2016)
236                                                                           Uveal Melanoma (TCGA, PanCancer Atlas)
237                                                                               Uveal Melanoma (TCGA, Provisional)
238                                       Whole-Genome Sequencing of Pancreatic Neuroendocrine Tumors (Nature, 2017)
239                                    Whole-exome sequences (WES) of pretreatment melanoma tumors (UCLA, Cell 2016)
240                                       Whole-genome sequencing of pilocytic astrocytomasatic (Nat Genetics, 2013)
241                                                                                    miRNAs in HCA/HCC (MSK, 2018)
                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     description
1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Mutation data from whole exome sequencing of 23 surgically resected pancreatic carcinomas with acinar differentiation.
2                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Comprehensive profiling of infant MLL-rearranged acute lymphoblastic leukemia (MLL-R ALL)
3                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Whole-genome and/or whole-exome sequencing was performed for ERG-altered B-ALL cases.
4                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  TCGA Acute Myeloid Leukemia, analysis of 200 adult cases; raw data at the <A HREF="https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseType=LAML&diseaseName=Acute%20Myeloid%20Leukemia">NCI</A>.
5                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Acute Myeloid Leukemia TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
6                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            TCGA Acute Myeloid Leukemia; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LAML/20160128/gdac.broadinstitute.org_LAML.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
7                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Comprehensive genomic profiling of 28 metastatic ACCs.
8                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     WGS of 21 salivary ACCs and targeted molecular analyses of a validation set (81 patients).
9                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Genomic profiling of 10 ACC PDX models.
10                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Whole-exome or whole-genome sequencing analysis of 60 ACC tumor/normal pairs
11                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Whole exome sequencing of 24 ACCs.
12                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Whole exome sequencing of 12 breast AdCCs.
13                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Adrenocortical Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
14                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           TCGA Adrenocortical Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <A HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/ACC/20160128/gdac.broadinstitute.org_ACC.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
15                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Mutation data from 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).
16                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Genomic Predictors of Survival in Patients with High-grade Urothelial Carcinoma of the Bladder. Targeted sequencing of 109 tumor samples (MSKCC, European Urology 2014).
17                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive profiling of 97 bladder cancer samples, including targeted sequencing of 15 cancer genes. Iyer et al., JCO in press.
18                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Whole exome and targeted sequencing of 34 plasmacytoid-variant (signet ring cell) tumors of the bladder
19                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Comprehensive analysis of muscle-invasive bladder cancers characterized by multiple TCGA analytical platforms.
20                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Exome and whole-genome sequencing of 99 bladder cancer samples. Generated by BGI.
21                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Whole exome sequencing of 50 patients with muscle invasive urothelial carcinoma
22                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             TCGA Bladder Cancer, containing 131 samples; raw data at the NCI.
23                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Bladder Urothelial Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
24                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCGA Bladder Urothelial Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BLCA/20160128/gdac.broadinstitute.org_BLCA.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
25                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Brain Lower Grade Glioma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
26                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           TCGA Brain Lower Grade Glioma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LGG/20160128/gdac.broadinstitute.org_LGG.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
27                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          The genomic profiles (somatic mutations [targeted sequencing], copy number alterations, and gene expression) of 2509 breast cancers.
28                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Targeted Sequencing of 1918 tumor and patient-matched normals.
29                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Whole exome sequencing of 22 phyllodes tumors
30                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Comprehensive profiling of 65 breast cancer samples. Generated by the British Columbia Cancer Research Centre.
31                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Comprehensive profiling of 103 breast cancer samples. Generated by the Broad Institute.
32                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Comprehensive profiling of 100 breast cancer samples. Generated by the Sanger Institute.
33                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Breast Invasive Carcinoma project. 817 cases (TCGA Cell 2015).
34                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Breast Invasive Carcinoma project. 825 cases.<br><i>Nature 2012.</i> <a href="https://tcga-data.nci.nih.gov/docs/publications/brca_2012/">Raw data via the TCGA Data Portal</a>.
35                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Breast Invasive Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
36                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        TCGA Breast Invasive Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/BRCA/20160128/gdac.broadinstitute.org_BRCA.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
37                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Dynamics of genomic clones in breast cancer patient xenografts.
38                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Cancer Cell Line Encyclopedia from the Broad Institute and Novartis, containing 1020 samples.
39                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Cervical Squamous Cell Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
40                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TCGA Cervical Squamous Cell Carcinoma and Endocervical Adenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/CESC/20160128/gdac.broadinstitute.org_CESC.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
41                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Targeted sequencing (MSK-IMPACT) of 195 tumor samples (194 with matched normals) from 192 cholangiocarcinoma patients.
42                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Exome sequencing of 15 cholangiocarcinoma cases.
43                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Exome Sequencing for Opisthorchis viverrini-related cholangiocarcinoma in 8 O.viverrini-related tumors and matched normal tissue.
44                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Cholangiocarcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
45                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               TCGA Cholangiocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/CHOL/20160128/gdac.broadinstitute.org_CHOL.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
46                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Exome sequencing of 160 CLL samples. Generated by the Broad Institute.
47                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Mutation data from whole-genome or whole-exome sequencing (WGS/WXS) of 428 CLL, 54 MBL, and 24 SLL samples.
48                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Whole-exome sequencing of 105 Chronic Lymphocytic Leukemia samples.
49                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Mutation data from whole genome and/or whole exome sequencing of 106 clear-cell renal cell carcinoma samples.
50                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Whole-exome sequencing of 619 colorectal cancers with clinicopathologic annotations.
51                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Comprehensive profiling of 72 colon cancer samples. Generated by Genentech.
52                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Colorectal Cancer project. <a href="https://tcga-data.nci.nih.gov/docs/publications/coadread_2012/">Raw data via the TCGA Data Portal</a>.
53                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Colorectal Adenocarcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
54                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                TCGA Colorectal Adenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/COADREAD/20160128/gdac.broadinstitute.org_COADREAD.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
55                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Targeted sequencing of primary, metastatic, and normal tissues from 69 colorectal adenocarcinoma patients.
56                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Targeted sequencing of 29 metastatic cutaneous squamous cell carcinoma samples.
57                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Whole-exome sequencing of 39 cases aggressive cutaneous squamous cell carcinoma.
58                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 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).
59                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    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).
60                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Mutation data from Exome/Whole Genome sequencing of 20 desmoplastic melanoma cases.
61                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Whole-exome sequencing of tumor/matching normal sample pairs from 135 DLBCL patients.
62                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Whole exome sequencing of 58 DLBCL samples.
63                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Genomic profiling of 1,001 DLBCL patients, mutations reported in only 150 driver genes.
64                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Diffuse Large B-Cell Lymphoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
65                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Whole genome sequencing analysis of 40 DLBCL tumors and 13 cell lines.
66                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Clinical Utility Of Prospective Molecular Characterization In Advanced Endometrial Cancer
67                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Comprehensive profiling of 149 esophageal adenocarcinoma samples from the Broad Institute.
68                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Esophageal Adenocarcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
69                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            TCGA Esophageal Carcinoma ; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/ESCA/20160128/gdac.broadinstitute.org_ESCA.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
70                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              WGS and WES of 88 esophageal squamous cell carcinoma samples. Generated by ICGC.
71                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Whole exome sequencing (WXS) or targeted deep sequencing (TDS) of 139 paired esophageal squamous cell carcinoma patients.
72                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Mutation data from whole-genome sequencing of 112 Ewing sarcoma samples and matched germ line DNA. <a href="http://cancerdiscovery.aacrjournals.org/content/4/11/1342/suppl/DC1">
73                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Mutation data from whole exome sequencing of 32 gallbladder carcinoma tumors with paired normals
74                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Whole-exome sequencing on 78 Gastric Adenocarcinoma of differing histologies and anatomic locations
75                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         The retrospective study using NGS approach for genetic characterization of NSCLC young adult patients
76                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Comprehensive genomic profiling of 477 Prostate Adenocarcinoma samples from CPC-GENE and public data sets, including TCGA-PRAD.
77                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Comprehensive profiling of 180 germ cell tumor samples.
78                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Glioblastoma project.<br> <a href="http://tcga-data.nci.nih.gov/tcga/">Raw data via the TCGA Data Portal</a>.
79                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Glioblastoma project. 206 primary glioblastoma samples.<br> <a href="https://tcga-data.nci.nih.gov/docs/publications/gbm_2008/">Raw data via the TCGA Data Portal</a>.
80                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Glioblastoma Multiforme TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
81                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        TCGA Glioblastoma Multiforme; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/GBM/20160128/gdac.broadinstitute.org_GBM.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
82                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Targeted Sequencing of CSF samples (91 samples with 86 matched normals) from 42 glioma patients.
83                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Comprehensive profiling of 74 head and neck squamous cell carcinoma samples from the Broad Institute.
84                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Comprehensive profiling of 32 head and neck squamous cell carcinoma samples from Johns Hopkins.
85                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            TCGA Head and Neck Squamous Cell Carcinoma, containing 279 samples; raw data at the <A HREF="https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseType=HNSC&diseaseName=Head and Neck Squamous Cell Carcinoma">NCI</A>.
86                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Head and Neck Squamous Cell Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
87                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        TCGA Head and Neck Squamous Cell Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/HNSC/20160128/gdac.broadinstitute.org_HNSC.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
88                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Mutation data from whole-exome sequencing (WXS) of 46 liver tumor and corresponding nontumor DNA.
89                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     MSK-IMPACT sequencing of 127 Hepatocellular Carcinoma tumor samples with matched normals.
90                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Mutation data from whole-exome sequencing (WXS) of 243 liver tumors identified mutational signatures associated with specific risk factors.
91                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Exome sequencing of 44 ALL samples.
92                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Whole exome sequencing of 10 benign insulinoma tumors. <A HREF="http://www.nature.com/ncomms/2013/131210/ncomms3810/extref/ncomms3810-s1.pdf">
93                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Exome Sequencing of 32 intrahepatic cholangiocarcinoma cases and 8 gall bladder carcinoma cases.
94                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          TCGA Kidney Chromophobe; raw data at the <A HREF="https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseType=KICH&diseaseName=Kidney Chromophobe">NCI</A>.
95                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Kidney Chromophobe TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
96                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           TCGA Kidney Chromophobe; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KICH/20160128/gdac.broadinstitute.org_KICH.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
97                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Comprehensive sequencing of 98 clear cell kidney cancer samples. Generated by BGI-Shenzhen.
98                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Multi region exome sequencing of 10 clear cell renal cell carcinomas (ccRCCs)
99                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    TCGA Kidney Renal Clear Cell Carcinoma, containing 499 samples; raw data at the <A HREF="https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseType=KIRC&diseaseName=Kidney Renal Clear Cell Carcinoma">NCI</A>.
100                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Kidney Renal Clear Cell Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
101                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           TCGA Kidney Renal Clear Cell Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KIRC/20160128/gdac.broadinstitute.org_KIRC.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
102                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Kidney Renal Papillary Cell Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
103                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       TCGA Kidney Renal Papillary Cell Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/KIRP/20160128/gdac.broadinstitute.org_KIRP.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
104                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Liver Hepatocellular Carcinoma from Asan Medical Center, Korea, containing 231 samples.
105                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Whole-genome sequencing of 27 hepatocellular carcinoma samples from RIKEN.
106                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Liver Hepatocellular Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
107                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              TCGA Liver Hepatocellular Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LIHC/20160128/gdac.broadinstitute.org_LIHC.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
108                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Mutation data from whole exome sequencing of 23 grade II glioma patients.
109                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Comprehensive profiling of 183 lung adenocarcinoma samples. Generated by the Broad Institute.
110                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Whole-exome sequencing of non small cell lung cancers treated with pembrolizumab
111                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                TCGA Lung Adenocarcinoma, containing 230 samples; raw data at the <A HREF="https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseType=LUAD&diseaseName=Lung Adenoarcinoma">NCI</A>.
112                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Lung Adenocarcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
113                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             TCGA Lung Adenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LUAD/20160128/gdac.broadinstitute.org_LUAD.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
114                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Targeted sequencing of 163 lung adenocarcinoma samples. Generated by WashU/Broad.
115                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Lung Squamous Cell Carcinoma project. 178 cases.<br><i>Nature 2012.</i> <a href="https://tcga-data.nci.nih.gov/docs/publications/lusc_2012/">Raw data via the TCGA Data Portal</a>.
116                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Lung Squamous Cell Carcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
117                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    TCGA Lung Squamous Cell Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/LUSC/20160128/gdac.broadinstitute.org_LUSC.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
118                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 TCGA Lymphoid Neoplasm Diffuse Large B-cell Lymphoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/DLBC/20160128/gdac.broadinstitute.org_DLBC.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
119                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Targeted sequencing of thoracic PDX lines to characterize genetic alterations clinical MSK-IMPACT cases. Data generated in Charles Rudin Lab.
120                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Targeted sequencing of 10,000 clinical cases using the MSK-IMPACT assay
121                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Prospective molecular characterization of lung adenocarcinomas for efficient patient matching.
122                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Targeted sequencing of clinical cases via MSK-IMPACT for prostate cancer (Abida et al, JCO Precision Oncology 2017).
123                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Whole exome sequencing molecular profiling of tumors across multiple cancer types including melanoma, non-small cell lung cancer, head and neck cancer, and bladder cancer. Generated by the Van Allen Lab, 2018.
124                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Exome profiling of 17 malignant peripheral nerve sheath tumors.
125                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Mutation data from whole-exome sequencing of 22 malignant pleural mesotheliomas (PLMESO) and matched blood samples.
126                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Whole exome sequencing of 29 primary mantle cell lymphomas.
127                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Comprehensive profiling of 92 medulloblastoma samples from the Broad Institute.
128                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive profiling of 125 matched tumor and germline medulloblastoma samples
129                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Whole genome sequencing of 37 medulloblastoma samples from the Pediatric Cancer Genome Project (PCGP), a joint project by St. Jude Children's Research Hospital and Washington University.
130                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    Mutation data from whole-genome sequencing (WGS) of 46 recurrent medulloblastoma samples.
131                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Somatic Mutation data from 25 Whole Genome Sequenced metastatic melanoma samples
132                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Whole-exome sequencing from TCGA LGG and GBM cases
133                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Mesothelioma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
134                                                                                                                                                                                                                                                                                                                                                    TCGA Mesothelioma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data at the <A HREF="https://portal.gdc.cancer.gov/legacy-archive/search/f?filters=%7B%22op%22:%22and%22,%22content%22:%5B%7B%22op%22:%22in%22,%22content%22:%7B%22field%22:%22cases.project.program.name%22,%22value%22:%5B%22TCGA%22%5D%7D%7D,%7B%22op%22:%22in%22,%22content%22:%7B%22field%22:%22cases.project.project_id%22,%22value%22:%5B%22TCGA-MESO%22%5D%7D%7D,%7B%22op%22:%22in%22,%22content%22:%7B%22field%22:%22files.data_format%22,%22value%22:%5B%22MAF%22%5D%7D%7D%5D%7D">GDC</A>.
135                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Targeted sequencing of 1134 metastatic colorectal cancer samples
136                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Prospective genomic profiling of 341 samples from 305 metastatic esophagogastric cancer patients
137                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Comprehensive profiling of 61 prostate cancer samples, including 50 metastatic CRPCs and 11 high-grade localized prostate cancers. Generated by Arul Chinnaiyan's and Scott Tomlins' labs at the University of Michigan.
138                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Comprehensive analysis of 150 metastatic prostate cancer samples by the SU2C/PCF Dream Team
139                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Whole exome/genome sequencing of paired tumor/normal samples from multiple myeloma patients
140                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Whole-exome sequencing was performed on 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.
141                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Whole exome sequencing of 29 myelodysplasia samples from the University of Tokyo.
142                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         NCI-60 cell line project; raw data at <A HREF="http://discover.nci.nih.gov/cellminer/loadDownload.do">CellMiner</A>.
143                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Genomic characterization using next generation sequencing (NGS) in Anaplastic Oligodendroglioma and Anaplastic Oligoastrocytomas.
144                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Whole genome sequencing of 56 NPC tumor / normal pairs. Generated by the Cancer Science Institute of Singapore, National University of Singapore.
145                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Whole genome sequencing of 87 neuroblastoma samples from the Academic Medical Center, Amsterdam.
146                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                Whole Genome and Whole Exome sequencing of 240 high-risk neuroblastoma cases.
147                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Mutation data from whole-genome sequencing of 56 neuroblastoma samples
148                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Whole exome sequencing of 114 metastatic tumor/normal pairs to understand genomic overlap between castration resistant adenocarcinoma (CRPC-Adeno) and neuroendocrine histologies (CRPC-NE)
149                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Next generation sequencing (NGS) of pre-treatment tumor to identify co-altered genes that predict for intrinsic resistance to BRAF inhibitor therapy in melanoma patients as a prelude to rational combination strategies.
150                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Whole Genome/Exome sequencing of 14 NHL cases.
151                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               NGS sequencing of 240 NSCLC cases treated at MSKCC with anti-PD-(L)1 based therapy using the MSK-IMPACT assay.
152                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Genomic Landscape and Predictors of Response for High Risk NMIBC
153                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Comprehensive profiling of 40 oral squamous cell carcinoma samples from MD Anderson.
154                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            <a href="http://cancergenome.nih.gov/">The Cancer Genome Atlas (TCGA)</a> Serous Ovarian Cancer project. 489 cases.<br> <a href="https://tcga-data.nci.nih.gov/docs/publications/ov_2011/">Raw data via the TCGA Data Portal</a>.
155                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Ovarian Serous Cystadenocarcinoma TCGA PanCancer data. The original data is <a href="https://gdc.cancer.gov/about-data/publications/pancanatlas">here</a>. The publications are <a href="https://www.cell.com/pb-assets/consortium/pancanceratlas/pancani3/index.html">here</a>.
156                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   TCGA Ovarian Serous Cystadenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/OV/20160128/gdac.broadinstitute.org_OV.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
157                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Comprehensive genomic and transcriptomic analysis of ALM patients.
158                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Somatic genome alterations in lung adenocarcinomas and squamous cell carcinomas.
159                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Comprehensive profiling of 99 pancreatic cancer samples. Generated by ICGC.
160                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Whole-genome and deep-exome sequencing analysis of 456 pancreatic ductal adenocarcinomas
161                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
162                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       TCGA Pancreatic Adenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PAAD/20160128/gdac.broadinstitute.org_PAAD.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
163                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Whole exome sequencing of 109 micro-dissected pancreatic cancer cases and normal control tissue.
164                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Whole exome sequencing of 10 pancreatic neuroendocrine tumor patients. <A HREF="https://www.sciencemag.org/content/331/6021/1199/suppl/DC1">
165                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       TCGA Papillary Thyroid Carcinoma, containing 230 samples; raw data at the <A HREF="https://tcga-data.nci.nih.gov/tcga/tcgaCancerDetails.jsp?diseaseType=THCA&diseaseName=Thyroid%20carcinoma">NCI</A>.
166              Comprehensive profiling of ALL Phase 2 samples. <p>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 <a href="https://ocg.cancer.gov/programs/target/using-target-data">Using TARGET Data</a> section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the <a href="https://ocg.cancer.gov/programs/target/target-publication-guidelines">TARGET Publication Guidelines</a>.</p
167              Comprehensive profiling of TARGET-AML samples. <p>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 <a href="https://ocg.cancer.gov/programs/target/using-target-data">Using TARGET Data</a> section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the <a href="https://ocg.cancer.gov/programs/target/target-publication-guidelines">TARGET Publication Guidelines</a>.</p>
168                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Whole exome sequencing of 96 pediatric Ewing Sarcoma tumors and 11 cell lines.
169                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Whole exome sequencing of 101 high-risk pediatric cancer patients
170                Comprehensive profiling of 1089 NBL samples. <p>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 <a href="https://ocg.cancer.gov/programs/target/using-target-data">Using TARGET Data</a> section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the <a href="https://ocg.cancer.gov/programs/target/target-publication-guidelines">TARGET Publication Guidelines</a>.</p>
171                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive genomic profiling of 961 Pediatric Cancer samples. Data generated from Pfister Lab & DKFZ/German Cancer Consortium.
172 Comprehensive profiling of 72 patients with Rhabdoid Tumor. <p>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 <a href="https://ocg.cancer.gov/programs/target/using-target-data">Using TARGET Data</a> section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the <a href="https://ocg.cancer.gov/programs/target/target-publication-guidelines">TARGET Publication Guidelines</a>.</p>
173        Comprehensive profiling of 657 Wilms' Tumor samples. <p>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 <a href="https://ocg.cancer.gov/programs/target/using-target-data">Using TARGET Data</a> section of the OCG website). If you are interested in using TARGET data for publication or other research purposes, you must follow the <a href="https://ocg.cancer.gov/programs/target/target-publication-guidelines">TARGET Publication Guidelines</a>.</p>
174                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
175                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              TCGA Pheochromocytoma and Paraganglioma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PCPG/20160128/gdac.broadinstitute.org_PCPG.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
176                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Poorly-Differentiated and Anaplastic Thyroid Cancers (MSKCC, J Clin Invest 2016)
177                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Mutation data from whole exome sequencing (WXS) of 19 immunocompetent primary central nervous system lymphoma (PCNSL) samples.
178                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                              Comprehensive profiling of 57 prostate cancer samples. Generated by Levi Garraway's lab at the Broad Institute and Mark Rubin's lab at Cornell.
179                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Comprehensive profiling of 112 prostate cancer samples. Generated by Levi Garraway's lab at the Broad Institute and Mark Rubin's lab at Cornell.
180                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                             Whole-genome and Transcriptome Sequencing of 65 Prostate Adenocarcinoma Patients. Generated by the Sun Lab 2017.
181                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Comprehensive profiling of prostate cancer samples. Generated by Peter Nelson's lab at the Fred Hutchinson Cancer Research Center.
182                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  MSKCC Prostate Oncogenome Project. 181 primary, 37 metastatic prostate cancer samples, 12 prostate cancer cell lines and xenografts.<br><a href="http://cbio.mskcc.org/cancergenomics/prostate/data/">Normalized flat data files</a>. <a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21032">Raw data via GEO (GSE21032)</a>.
183                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Whole Exome Sequencing of 1013 prostate cancer samples.
184                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Integrated profiling of 333 primary prostate adenocarcinoma samples; raw data at the <A HREF="https://tcga-data.nci.nih.gov/docs/publications/prad_2015/">NCI</A>.
185                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
186                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCGA Prostate Adenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/PRAD/20160128/gdac.broadinstitute.org_PRAD.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
187                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Copy-number profiling of 103 primary prostate cancer samples from MSKCC. <a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE54691">Raw data via GEO (GSE54691)</a>.
188                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Exome profiling of prostate cancer samples and matched organoids.
189                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Targeted sequencing of 151 patients with advanced, treatment resistant head and neck tumors
190                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Exome sequencing of 139 Renal Non-Clear Cell Carcinoma (NCCRCC) samples.
191                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Whole-genome sequencing of tumor-normal sample pairs from 40 patients with Malignant Rhabdoid Cancer.
192                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Mutation data from WGS and/or WXS of 43 rhabdomyosarcoma samples.
193                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Findings of a multi-histology, genomically selected, 'basket' study utilizing the pan-HER kinase inhibitor neratinib.
194                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            The Sarcoma Genome Project, <a href="http://www.mskcc.org/">MSKCC</a> and <a href="http://www.broadinstitute.org/">The Broad Institute</a>. 207 high-grade adult soft tissue sarcomas across seven subtypes of disease.<br> <a href="http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE21124">Raw data via GEO (GSE21124)</a>.
195                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
196                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         TCGA Sarcoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/SARC/20160128/gdac.broadinstitute.org_SARC.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
197                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Comprehensive profiling of 121 melanoma samples. Generated by the Broad Institute.
198                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
199                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCGA Skin Cutaneous Melanoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/SKCM/20160128/gdac.broadinstitute.org_SKCM.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
200                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  Exome sequencing of 91 melanoma samples. Generated by Yale.
201                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Sequencing of 44 melanoma patients pre and post vemurafenib treatment. Generated by the Broad Institute.
202                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Targeted sequencing of 12 SCCO samples.
203                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Comprehensive profiling of 29 small cell lung cancer samples. Generated by the Clinical Lung Cancer Genome Project.
204                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Comprehensive profiling of 36 primary human SCLC tumors and 17 matched SCLC and lymphoblastoid cell lines. Generated by Johns Hopkins.
205                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Comprehensive WGS profiling of 110 human SCLC specimens.
206                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Whole Exome Sequencing of paired chemosensitive and chemoresistant SCLC PDX.
207                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                        Whole exome sequencing of tumor/normal pairs from 15 vulvar squamous cell carcinomas.
208                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Whole genome sequencing of 100 tumor-normal pairs from the University of Hong Kong and Pfizer.
209                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           TCGA Stomach Adenocarcinoma, containing 295 samples; raw data at the <A HREF="https://tcga-data.nci.nih.gov/docs/publications/stad_2014/">NCI</A>.
210                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
211                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      TCGA Stomach Adenocarcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/STAD/20160128/gdac.broadinstitute.org_STAD.Mutation_Packager_Raw_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
212                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Whole exome sequencing of 30 diffuse-type gastric adenocarcinoma samples from the University of Tokyo.
213                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Exome sequencing of 22 gastric cancer samples.
214                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCGA data for Esophagus-Stomach Cancers.
215                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Genomic and survival data from 1661 tumor-normal pairs from 1661 patients with various cancer types sequenced with the MSK-IMPACT assay.
216                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                      Molecular Analysis of Unclassified Renal Cell Carcinoma
217                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               Genomic Characterization using next-generation sequencing of Upper Tract Urothelial Carcinoma.
218                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     TCGA Testicular Germ Cell Cancer; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/TGCT/20160128/gdac.broadinstitute.org_TGCT.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
219                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
220                                                                                                                                                                                                                                                                                                                                                                                                                      The Angiosarcoma Project is a patient-driven initiative. 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, 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.ascproject.org. Questions about these data can be directed to data@ascproject.org.
221                                                                                                                                                                             The Metastatic Breast Cancer Project is a patient-driven initiative. This study includes genomic data, patient-reported data (pre-pended as PRD), medical record data (MedR), and pathology report data (PATH). All of the titles and descriptive text for the clinical data elements have been finalized in partnership with numerous patients in the project. 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.mbcproject.org. For questions about these data, including how to cite, please visit www.mbcproject.org/data-release or direct questions to data@mbcproject.org.
222                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                       Whole exome sequencing of 28 thymic epithelial tumors.
223                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
224                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         TCGA Thymoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/THYM/20160128/gdac.broadinstitute.org_THYM.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
225                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
226                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                               TCGA Thyroid Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/THCA/20160128/gdac.broadinstitute.org_THCA.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
227                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Whole-exome sequencing (Illumina HiSeq 2500) of 72 tumor samples (with 32 matched normals) in Urothelial Carcinoma.
228                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Whole exome sequencing (WXS) of 22 uterine carcinosarcoma/uterine malignant mixed Mullerian (UCS) tumors. <A HREF="http://www.nature.com/ncomms/2014/140919/ncomms6006/extref/ncomms6006-s1.pdf">
229                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
230                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            TCGA Uterine Carcinosarcoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UCS/20160128/gdac.broadinstitute.org_UCS.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
231                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                           Whole exome sequencing of paired tumor-normal DNAs from 16 cases of clear cell endometrial tumors.
232                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Integrative genomic analysis of 373 endometrial carcinomas. TCGA Uterine Corpus Endometrial Carcinoma project; raw data at the <A HREF="https://tcga-data.nci.nih.gov/docs/publications/ucec_2013/">NCI</A>.
233                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
234                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            TCGA Uterine Corpus Endometrial Carcinoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UCEC/20160128/gdac.broadinstitute.org_UCEC.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
235                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 Whole-genome or whole-exome sequencing of tumor/normal pairs from 28 uveal melanoma samples.
236                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                            Comprehensive TCGA PanCanAtlas (https://gdc.cancer.gov/about-data/publications/pancanatlas) data from 11k cases and all TCGA tumor types (33). (PMID: 29625048, 29596782, 29622463, 29617662, 29625055, 29625050)
237                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                    TCGA Uveal Melanoma; raw data at the <A HREF="https://tcga-data.nci.nih.gov/">NCI</A>; source mutation data from <a HREF="http://gdac.broadinstitute.org/runs/stddata__2016_01_28/data/UVM/20160128/gdac.broadinstitute.org_UVM.Mutation_Packager_Calls.Level_3.2016012800.0.0.tar.gz">GDAC Firehose</A>.
238                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          Whole-genome sequencing of 102 primary PanNETs and the defined genomic events that characterize their pathogenesis.
239                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                   Genetic Characterization of 38 pretreatment (pembrolizumab and nivolumab) melanoma tumors.
240                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                         Whole-genome sequencing of 96 pilocytic astrocytomasatic alterations in pilocytic astrocytoma conducted by the International Cancer Genome Consortium (ICGC) PedBrain Tumor Project.
241                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                     Sequencing of miRNAs from hepatocellular carcinomas, hepatocellular adenomas and paired.
> 
> # Get available case lists (collection of samples) for a given cancer study
> mycancerstudy = getCancerStudies(mycgds)[2,1]
Warning in file(file, "rt") :
  cannot open URL 'http://www.cbioportal.org/webservice.do?cmd=getCancerStudies&': HTTP status was '503 Service Unavailable'
Error in file(file, "rt") : 
  cannot open the connection to 'http://www.cbioportal.org/webservice.do?cmd=getCancerStudies&'
Calls: getCancerStudies ... processURL -> processURL.CGDS -> read.table -> file
Execution halted