Expression of gene mutations. (A) Stacked bar chart showing the proportion of mutations for each patient that are expressed (present) or not because the mutated (mut) allele is not expressed (not present) or the gene is not expressed at all. (B) Scatter plot showing a correlation between the cancer cell fraction by DNA analysis and the tumor fraction by RNA analysis, the latter representing the ratio between mutant and wild-type transcripts. (C) Stacked bar chart showing the proportion of mutations that are expressed or not expressed for each quartile (Qu) of gene expression because the mutated allele is not expressed (not present) or the gene is not expressed at all. (D) Heat map for the most commonly mutated genes (in rows) showing their expression level in each patient (columns); whether a mutation is present in both RNA and DNA samples or in DNA samples only; and the cancer cell fraction of that mutation, which is proportional to the size of the square. (E) Heat map showing the probabilities of genes being dysregulated in patients with mutated TP53. P(F) denotes the probability that the mutation affects the expression in the same individual; mutation type can be either missense or complex (complex indicates that the patient has more than 1 mutation). The probability scale indicates the probability that the gene is upregulated (red) or downregulated (blue).