Fig. 4

mRNA expression levels of APOBEC-target genes and DNA loop stability of APOBEC-associated known driver and passenger mutations in bladder cancer (BCa). a Distribution of mRNA levels (normalised against GAPDH) for APOBEC-target genes at the whole-transcriptome scale in BCa from The Cancer Genome Atlas (TCGA) [17]. The percentile ranks of genes were converted into quartiles. Blue and black fonts indicate known OG/TSGs and other genes, respectively. b Distribution of the expression ranks in percentile in BCa between APOBEC-target known OG/TSGs and genes with unknown function. c Distribution comparison of the loop stability score between APOBEC-associated known driver and passenger mutations. Higher normalised ΔG (kcal/mol) scores reflect lower loop stability. Passengers include 5 silent mutations, 1 mutation within a transit peptide and 1 missense mutation on a gene with an absence of mRNA expression. The functional aattributions for mutations and genes are curated from a recent publication [41]. b, c P value: Wilcoxon test. OG, oncogene; TSG, tumour suppressor gene