Available CHASMplus models

CHASMplus can perform predictions either using a cancer type-specific model or in a “pan-cancer” manner by consider multiple cancer types together. Pan-cancer is a useful default if a matching cancer type is not available from The Cancer Genome Atlas (TCGA). We have made the following results available through OpenCRAVAT:

Annotator name	Data source	Cancer type
chasmplus	TCGA	Pan-cancer (multiple cancer types)
chasmplus_LAML	TCGA	Acute Myeloid Leukemia
chasmplus_ACC	TCGA	Adrenocortical carcinoma
chasmplus_BLCA	TCGA	Bladder Urothelial Carcinoma
chasmplus_LGG	TCGA	Brain Lower Grade Glioma
chasmplus_BRCA	TCGA	Breast invasive carcinoma
chasmplus_CESC	TCGA	Cervical squamous cell carcinoma and endocervical adenocarcinoma
chasmplus_CHOL	TCGA	Cholangiocarcinoma
chasmplus_COAD	TCGA	Colon adenocarcinoma
chasmplus_ESCA	TCGA	Esophageal carcinoma
chasmplus_GBM	TCGA	Glioblastoma multiforme
chasmplus_HNSC	TCGA	Head and Neck squamous cell carcinoma
chasmplus_KICH	TCGA	Kidney Chromophobe
chasmplus_KIRC	TCGA	Kidney renal clear cell carcinoma
chasmplus_KIRP	TCGA	Kidney renal papillary cell carcinoma
chasmplus_LIHC	TCGA	Liver hepatocellular carcinoma
chasmplus_LUAD	TCGA	Lung adenocarcinoma
chasmplus_LUSC	TCGA	Lung squamous cell carcinoma
chasmplus_DLBC	TCGA	Lymphoid Neoplasm Diffuse Large B-cell Lymphoma
chasmplus_MESO	TCGA	Mesothelioma
chasmplus_OV	TCGA	Ovarian serous cystadenocarcinoma
chasmplus_PAAD	TCGA	Pancreatic adenocarcinoma
chasmplus_PCPG	TCGA	Pheochromocytoma and Paraganglioma
chasmplus_PRAD	TCGA	Prostate adenocarcinoma
chasmplus_READ	TCGA	Rectum adenocarcinoma
chasmplus_SARC	TCGA	Sarcoma
chasmplus_SKCM	TCGA	Skin Cutaneous Melanoma
chasmplus_STAD	TCGA	Stomach adenocarcinoma
chasmplus_TGCT	TCGA	Testicular Germ Cell Tumors
chasmplus_THYM	TCGA	Thymoma
chasmplus_THCA	TCGA	Thyroid carcinoma
chasmplus_UCS	TCGA	Uterine Carcinosarcoma
chasmplus_UCEC	TCGA	Uterine Corpus Endometrial Carcinoma
chasmplus_UVM	TCGA	Uveal Melanoma