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Table 2 TCGA cancer types and corresponding pan-cancer organ systems

From: Pan-cancer analysis of genomic and transcriptomic data reveals the prognostic relevance of human proteasome genes in different cancer types

Disease name and pan-organ system Cohort RNA-seq dataa Survival analysisb cBioPortalc KM plotterd
   Cancer tissue Normal tissue    
Central nervous system (CNS)
  Glioblastoma multiforme GBM 166 5 167 592  
  Brain lower grade glioma LGG 530 0 528 514  
Endocrine
  Adrenocortical carcinoma ACC 79 0 79 92  
  Thyroid carcinoma THCA 496 58 510 500  
Gastrointestinal
  Cholangiocarcinoma CHOL 36 9 36 36  
  Colon adenocarcinoma COAD 191 0 469   
  Esophageal carcinoma ESCAe 185 11 162 182  
  Liver hepatocellular carcinoma LIHC 147 50 374 372 364
  Pancreatic adenocarcinoma PAAD 56 0 178 184  
  Rectum adenocarcinoma READ 72 0 166   
  Colorectal adenocarcinoma/Rectum adenocarcinoma COADREADf   0   594  
  Stomach adenocarcinoma STAD 415 35 375 440 875
Gynecologic
  Breast invasive carcinoma BRCA 1026 108 1103 1084 1879
  Cervical and endocervical cancers CESC 159 0 306 297  
  Ovarian serous cystadenocarcinoma OV 265 0 379 585 1656
  Uterine corpus endometrial carcinoma UCEC 369 0 548 529  
Head and neck
  Head and neck squamous cell carcinoma HNSC 425 42 502 523  
Hematologic and lymphatic malignancies
  Lymphoid neoplasm diffuse large B-cell lymphoma DLBC 48 0 48 48  
  Acute myeloid leukemia LAML 173 0 151 200  
  Thymoma THYM 120 0 119 123  
Melanocytic
  Skin cutaneous melanoma SKCM 472 0 471 448  
  Uveal melanoma UVM 80 0 80 80  
Neural crest-derived
  Pheochromocytoma and paraganglioma PCPG 184 3 183 178  
Soft tissue
  Sarcoma SARC 105 0 263 255  
  Uterine carcinosarcoma UCS 57 0 56 57  
Thoracic
  Lung adenocarcinoma LUAD 490 58 526 566 1925
  Lung squamous cell carcinoma LUSC 482 50 501 487
  Mesothelioma MESO 87 0 86 87  
Urologic
  Bladder urothelial carcinoma BLCA 223 19 411 411  
  Kidney chromophobe KICH 66 25 65 65  
  Kidney renal clear cell carcinoma KIRC 507 72 535 512  
  Kidney renal papillary cell carcinoma KIRP 161 30 289 283  
  Prostate adenocarcinoma PRAD 498 52 499 494  
  Testicular germ cell tumors TGCT 156 0 139 149  
  Total   8526 627 10,304 10,967 6699
  1. UNC RNASeqV2 level 3 expression (normalized RSEM) data were retrieved from Broad GDAC Firehose (https://gdac.broadinstitute.org/)
  2. Survival analysis was performed using the dataset https://gdc.cancer.gov/about-data/publications/PanCan-Clinical-2018
  3. Mutational profiling data (mutated genes, CNA genes, and fusion genes) was retrieved from cBioPortal for Cancer Genomics, http://www.cbioportal.org/study/summary?id=laml_tcga_pan_can_atlas_2018%2Cacc_tcga_pan_can_atlas_2018%2Cblca_tcga_pan_can_atlas_2018%2Clgg_tcga_pan_can_atlas_2018%2Cbrca_tcga_pan_can_atlas_2018%2Ccesc_tcga_pan_can_atlas_2018%2Cchol_tcga_pan_can_atlas_2018%2Ccoadread_tcga_pan_can_atlas_2018%2Cdlbc_tcga_pan_can_atlas_2018%2Cesca_tcga_pan_can_atlas_2018%2Cgbm_tcga_pan_can_atlas_2018%2Chnsc_tcga_pan_can_atlas_2018%2Ckich_tcga_pan_can_atlas_2018%2Ckirc_tcga_pan_can_atlas_2018%2Ckirp_tcga_pan_can_atlas_2018%2Clihc_tcga_pan_can_atlas_2018%2Cluad_tcga_pan_can_atlas_2018%2Clusc_tcga_pan_can_atlas_2018%2Cmeso_tcga_pan_can_atlas_2018%2Cov_tcga_pan_can_atlas_2018%2Cpaad_tcga_pan_can_atlas_2018%2Cpcpg_tcga_pan_can_atlas_2018%2Cprad_tcga_pan_can_atlas_2018%2Csarc_tcga_pan_can_atlas_2018%2Cskcm_tcga_pan_can_atlas_2018%2Cstad_tcga_pan_can_atlas_2018%2Ctgct_tcga_pan_can_atlas_2018%2Cthym_tcga_pan_can_atlas_2018%2Cthca_tcga_pan_can_atlas_2018%2Cucs_tcga_pan_can_atlas_2018%2Cucec_tcga_pan_can_atlas_2018%2Cuvm_tcga_pan_can_atlas_2018
  4. Survival analysis using KM plotter, https://kmplot.com/analysis/
  5. Esophageal adenocarcinoma and Esophageal squamous carcinoma was merged into one as Esophageal carcinoma
  6. COAD and READ was merged in cBioPortal dataset