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. Author manuscript; available in PMC: 2019 Apr 5.
Published in final edited form as: Cell. 2018 Apr 5;173(2):321–337.e10. doi: 10.1016/j.cell.2018.03.035

Figure 1. TCGA PanCanAtlas Pathways data set and workflow.

Figure 1

(A) Distribution of cancer types in the cohort, including molecular subtypes analyzed. (B) Workflow for pathway curation and analysis. Genes were curated from previous TCGA efforts and the scientific literature. Only genes with evidence for statistically recurrent or known driver alterations in the uniformly processed TCGA PanCanAtlas data set were included in the curated pathway templates. TCGA disease codes and abbreviations: AML: Acute Myeloid Leukemia; ACC:Adrenocortical carcinoma; BRCA:Breast cancer; CESC:Cervical cancer; KICH:Chromophobe renal cell carcinoma; KIRC:Clear cell kidney carcinoma; CRC: colorectal adenocarcinoma; SKCM:Cutaneous melanoma; DLBC:Diffuse large B-cell lymphoma; GBM:Glioblastoma multiforme; HNSC:Head and neck squamous cell carcinoma; LIHC:Liver hepatocellular carcinoma; LGG:Lower Grade Glioma; LUAD:Lung adenocarcinoma; LUSC:Lung squamous cell carcinoma; OV:Ovarian serous cystadenocarcinoma; KIRP:Papillary kidney carcinoma; THCA:Papillary thyroid carcinoma; STAD:Stomach adenocarcinoma; PRAD:Prostate adenocarcinoma; BLCA:Urothelial bladder cancer; UCS:Uterine carcinosarcoma; UCEC:Uterine corpus endometrial carcinoma; ESCA:Esophageal cancer; PCPG:Pheochromocytoma & Paraganglioma; PAAD:Pancreatic ductal adenocarcinoma; MESO:Mesothelioma; UVM:Uveal melanoma; SARC:Sarcoma; CHOL:Cholangiocarcinoma; TGCT:Testicular germ cell cancer; THYM:Thymoma; STES:Stomach and esophageal cancer; EBV:Epstein-Barr Virus; HPV:Human Papillomavirus; DDLPS:Dedifferentiated liposarcoma; LMS:Leiomyosarcoma; MFS/UPS:Myxofibrosarcoma/Undifferentiated Pleomorphic Sarcoma; ESCC:Esophageal Squamous Cell Carcinoma; GS:Genomically Stable; CIN:Chromosomal Instability; MSI:Microsatellite Instability.