Cancer data (IHC)

Staining profiles for proteins in 20 human tumor tissues based on immunohistochemistry using tissue micro arrays. The tab-separated file includes Ensembl gene identifier , gene name , tumor name,and the number of patients annotated for different staining levels ("High", "Medium", "Low" & "Not detected"). The data is based on The Human Protein Atlas version24.0 and Ensembl version 109.

HPA IHC cancer types

CancerOrgan
Breast cancerBreast and female reproductive system
CarcinoidPancreas
Cervical cancerBreast and female reproductive system
Colorectal cancerGastrointestinal tract
Endometrial cancerBreast and female reproductive system
GliomaBrain
Head and neck cancerGastrointestinal tract
Liver cancerLiver & Gallbladder
Lung cancerRespiratory system
LymphomaBone marrow & Lymphoid tissues
MelanomaSkin
Ovarian cancerBreast and female reproductive system
Pancreatic cancerPancreas
Prostate cancerMale reproductive system
Renal cancerKidney & Urinary bladder
Skin cancerSkin
Stomach cancerGastrointestinal tract
Testis cancerMale reproductive system
Thyroid cancerEndocrine tissues
Urothelial cancerKidney & Urinary bladder
Download: cancer_cancers.tsv.zip | 20 lines

Cancer prognostic data

Log-rank P value for Kaplan-Meier analysis of correlation between mRNA expression level and patient survival in prognostic cohorts based on 21 cancers and validation cohorts for 10 of the cancers. The tab-separated file includes Ensembl gene identifier, gene name, tumor name including cohort variant, and log-rank p values for patient survival and mRNA correlation. The data is based on The Human Protein Atlas version24.0 and Ensembl version 109.

Prognostic analysis cancer types

CancerAbbriviationCancer groupOrganNum samples
Bladder Urothelial CarcinomaBLCAUrothelial cancerKidney & Urinary bladder169
Breast Invasive CarcinomaBRCABreast cancerBreast and female reproductive system1022
Cervical Squamous Cell Carcinoma and Endocervical AdenocarcinomaCESCCervical cancerBreast and female reproductive system283
Colon AdenocarcinomaCOADColorectal cancerGastrointestinal tract254
Glioblastoma MultiformeGBMGliomaBrain141
Head and Neck Squamous Cell CarcinomaHNSCHead and neck cancerGastrointestinal tract492
Kidney ChromophobeKICHRenal cancerKidney & Urinary bladder64
Kidney Renal Clear Cell CarcinomaKIRCRenal cancerKidney & Urinary bladder521
Kidney Renal Papillary Cell CarcinomaKIRPRenal cancerKidney & Urinary bladder282
Liver Hepatocellular CarcinomaLIHCLiver cancerLiver & Gallbladder362
Lung AdenocarcinomaLUADLung cancerRespiratory system497
Lung Squamous Cell CarcinomaLUSCLung cancerRespiratory system489
Ovary Serous CystadenocarcinomaOVOvarian cancerBreast and female reproductive system349
Pancreatic AdenocarcinomaPAADPancreatic cancerPancreas176
Prostate AdenocarcinomaPRADProstate cancerMale reproductive system480
Rectum AdenocarcinomaREADColorectal cancerGastrointestinal tract88
Skin Cuteneous MelanomaSKCMMelanomaSkin99
Stomach AdenocarcinomaSTADStomach cancerGastrointestinal tract346
Testicular Germ Cell TumorTGCTTestis cancerMale reproductive system133
Thyroid CarcinomaTHCAThyroid cancerEndocrine tissues495
Uterine Corpus Endometrial CarcinomaUCECEndometrial cancerBreast and female reproductive system176
Download: cancer_rna_tcga_cancers.tsv.zip | 21 lines

Validation cohort cancer types
CancerAbbriviationCancer groupOrganNum samples
Breast Invasive CarcinomaBRCABreast cancerBreast and female reproductive system50
Colon AdenocarcinomaCOADColorectal cancerGastrointestinal tract486
Glioblastoma MultiformeGBMGliomaBrain58
Kidney Renal Clear Cell CarcinomaKIRCRenal cancerKidney & Urinary bladder100
Liver Hepatocellular CarcinomaLIHCLiver cancerLiver & Gallbladder231
Lung AdenocarcinomaLUADLung cancerRespiratory system105
Lung Squamous Cell CarcinomaLUSCLung cancerRespiratory system68
Ovary Serous CystadenocarcinomaOVOvarian cancerBreast and female reproductive system81
Pancreatic AdenocarcinomaPAADPancreatic cancerPancreas80
Rectum AdenocarcinomaREADColorectal cancerGastrointestinal tract207
Download: cancer_rna_validation_cancers.tsv.zip | 10 lines

Cancer data (CPTAC MS)

Based on MS data differential expression between 11 cancers and matched normal tissues was calculated through fold changes and evaluated by statistical tests (Wilcoxon rank-sum) with adjusted p-values for multiple testing (Bonferroni). The tab-separated file includes Ensembl gene identifier, gene name, tumor name, log2 fold change and adjusted p-value. The data is mapped with gene name to Ensembl version 109.

CPTAC cancer types

CancerCPTAC datasetSample sizeStudy focusProteomics Techniques
Colon AdenocarcinomaPDC00011697 tumors, 100 normalProteomic analysis of colon cancer using TMT10plex and label-free quantificationTMT-10, Global proteome
Endometrioid adenocarcinomaPDC000125104 tumors, 49 normalProteogenomic analysis of uterine corpus endometrial carcinoma (UCEC)TMT-10, Global proteome
Glioblastoma MultiformePDC000204100 tumors, 10 normalProteomic, phosphoproteomic, and acetylome profiles of glioblastoma multiforme (GBM)TMT-11, Global proteome
Head and Neck Squamous Cell CarcinomaPDC000221111 tumors, 72 normalProteogenomic characterization of human papilloma virus (HPV)-negative HNSCCTMT-11, Global proteome
Renal cell carcinomaPDC000127110 tumors, 84 normalProteogenomic analysis of clear cell renal cell carcinoma (CCRCC)TMT-10, Global proteome
Liver Hepatocellular CarcinomaPDC000198165 tumors, 165 normalProteogenomic analysis of hepatocellular carcinomaTMT-11, Global proteome
Lung AdenocarcinomaPDC000234111 tumors, 102 normalProteogenomic characterization of lung adenocarcinoma (LUAD)TMT-10, Global proteome
Lung Squamous Cell CarcinomaPDC000153110 tumors, 102 normalProteogenomic landscape of LSCC, identification of NSD3 as an alternative driver in FGFR1-amplified tumorsTMT-11, Global proteome
Ovary Serous CystadenocarcinomaPDC00011085 tumors, 23 normalProteogenomic and glycoproteome analysis of ovarian cancerTMT-10, Global proteome
Pancreatic ductal adenocarcinomaPDC000270145 tumors, 90 normalComprehensive proteogenomic analysis of pancreatic cancerTMT-11, Global proteome
Uterine Corpus Endometrial CarcinomaPDC000439140 tumors, 20 normalProteogenomic analysis of endometrial carcinoma, linking molecular markers to potential immunotherapy and treatmentsTMT-11, Global proteome
Download: cancer_cptac_cancers.tsv.zip | 11 lines