Fig. 1
From: Pan-urologic cancer genomic subtypes that transcend tissue of origin
Alternative classification approach defines cancer subtypes that transcend tissue-of-origin. a Expression patterns of a representative marker (PDCD1) that distinguishes between both cancer type and genomic subtype across TCGA BLCA, KICH, KIRC, KIRP, PRAD, and TGCT cancers. Left, PDCD1 expression, with values normalized using a “standard” approach (s.d. from the median across all cancers); right, PDCD1 expression, with values normalized within each cancer type (giving the values within each cancer type shown a median of zero and s.d. of one). Box plots represent 5%, 25%, 50%, 75%, and 95%. b Unsupervised hierarchical clustering of TCGA urologic cancer cases (n = 1944), where expression values have standard normalization. The top 2000 most variable genes in the pan-urologic cancer data set were used in the clustering. TCGA project designation and pan-urologic cancer genomic subtype are indicated (described in Fig. 2). c Similar to part b, but using expression values normalized within each cancer type. The same genes from part b were used to carry out the clustering in part c. TCGA project designation: BLCA, Bladder Urothelial Carcinoma; KICH, Kidney Chromophobe; KIRC, Kidney renal clear cell carcinoma; KIRP, Kidney renal papillary cell carcinoma; PRAD, Prostate adenocarcinoma; TGCT, Testicular Germ Cell Tumors
