Fig. 3

Copy number changes drive gene expression changes. (A) Circos plot of correlation of copy number changes and gene expression across all tumor samples. Significant Kendall’s rank correlation coefficient (> = 0.3) shown in blue and significant Pearson correlation coefficient (> = 0.7) shown in red. (B) Unsupervised hierarchical clustering of the MSigDB C1 positional dataset for ssGSEA values closely recapitulates the stratification of histological subtypes by gene expression clustering. (C) Principal component analysis (PCA) of C1 positional ssGSEA values reveals distinct clustering by histological subtype