Fig. 3: Somatic mutations and copy number alterations in CPI-MIBC PURE-01 expression subtypes.
a Dotplot (left, i): Hallmark gene-set analysis for PURE01 tumors with mutations in 13 selected genes (relative to WT). Barplot (right, ii): fraction of samples in a subtype with somatic mutations in KRAS, FGFR3, KMT2C, or ATR. Exact padj, given for each gene, were calculated as follows. P-values were calculated using two-sided Pearson’s chi-square tests, and were Bonferroni-corrected for multiple comparisons. b Relative mutation frequency of five selected genes, stratified by response (CR or PR; non-response is NR). P-values were calculated using two-sided Pearson’s chi-square tests, and were Bonferroni-corrected for multiple hypothesis testing. c Oncoprints for somatic mutations and somatic copy number alterations in the five n = 82 PURE-01 expression subtypes. The top-to-bottom gene order is set by decreasing alteration frequency in the Luminal-Excluded (S1) subtype. For each subtype, horizontal bars to the right indicate the number of samples with an alteration in that gene, and the types of alterations. Barplots at the top of each subtype’s oncoprint show the total number of genetic alterations in the oncoprint genes, colored by the alteration type.
