Pan-Cancer Transcriptomic and Proteomic Analysis

Results are based in part upon data generated by TCGA Research Network (http://cancergenome.nih.gov/). We aggregated TCGA transcriptomic and RPPA data from public repositories, listed in the “Data availability” section. RNA-seq expression data were processed by TCGA at the gene level, rather than at the transcript level. Tumors spanned 32 different TCGA projects, each project representing a specific cancer type, listed as follows: LAML, acute myeloid leukemia; ACC, adrenocortical carcinoma; BLCA, bladder urothelial carcinoma; LGG, lower grade glioma; BRCA, breast invasive carcinoma; CESC, cervical squamous cell carcinoma and endocervical adenocarcinoma; CHOL, cholangiocarcinoma; CRC, colorectal adenocarcinoma (combining COAD and READ projects); ESCA, esophageal carcinoma; GBM, glioblastoma multiforme; HNSC, head and neck squamous cell carcinoma; KICH, kidney chromophobe; KIRC, kidney renal clear cell carcinoma; KIRP, kidney renal papillary cell carcinoma; LIHC, liver hepatocellular carcinoma; LUAD, lung adenocarcinoma; LUSC, lung squamous cell carcinoma; DLBC, lymphoid neoplasm diffuse large B-cell lymphoma; MESO, mesothelioma; OV, ovarian serous cystadenocarcinoma; PAAD, pancreatic adenocarcinoma; PCPG, pheochromocytoma and paraganglioma; PRAD, prostate adenocarcinoma; SARC, sarcoma; SKCM, skin cutaneous melanoma; STAD, stomach adenocarcinoma; TGCT, testicular germ cell tumors; THYM, thymoma; THCA, thyroid carcinoma; UCS, uterine carcinosarcoma; UCEC, uterine corpus endometrial carcinoma; UVM, uveal melanoma. Cancer molecular profiling data were generated through informed consent as part of previously published studies and analyzed per each original study’s data use guidelines and restrictions.

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Chen F., Chandrashekar D.S., Varambally S, & Creighton C.J. (2019). Pan-cancer molecular subtypes revealed by mass-spectrometry-based proteomic characterization of more than 500 human cancers. Nature Communications, 10, 5679.

Publication 2019

Acute myeloid leukemia Adenocarcinoma Adrenocortical carcinoma Bladder Breast carcinoma Cancer Carcinosarcoma Cell Cervical Cholangiocarcinoma Chromophobe Coad Diffuse large b cell lymphoma Endocervical Esca Esophageal carcinoma Gene Glioblastoma multiforme Glioma Head and neck squamous cell carcinoma Kidney Kidney carcinoma Kidney clear cell carcinoma Liver carcinoma Lung Lung adenocarcinoma Lymphoid Mesothelioma Neoplasm Ovarian Pancreatic Paraganglioma Pcpg Pheochromocytoma Prostate Rna seq Sarcoma Serous cystadenocarcinoma Skin melanoma Squamous cell carcinoma Stomach Testicular germ cell tumors Thymoma Thyroid carcinoma Transcriptomic Urothelial carcinoma Uterine Uterine endometrial carcinoma Uveal melanoma

Corresponding Organization :

Other organizations : Baylor College of Medicine, University of Alabama at Birmingham

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Variable analysis

independent variables

TCGA transcriptomic and RPPA data from public repositories

dependent variables

Cancer molecular profiling data

control variables

Data were processed and analyzed per each original study's data use guidelines and restrictions

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