Fig. 4
From: Circular RNA expression is abundant and correlated to aggressiveness in early-stage bladder cancer
Multiple abundant circRNAs are differentially expressed between NMIBC risk classes. a Total sample-wise circRNA expression. Red line indicates median expression. **P < 0.01; ***P < 0.001 (Wilcoxon rank sum test). b Differential expression analysis of 279 abundant circRNAs between risk class 1 and 2 (Wilcoxon rank sum test). The log2 Fold Changes are plotted against the negative log10 P-values. Colors indicate if observed changes are significant (red) or not (grey) (BH correction with FDR < 0.1). c Plot of the empirical cumulative distribution function of ciRS-7 illustrates bladder cancer heterogeneity, where only a subset of samples show any expression. d Differential expression analysis of circular-to-linear ratios of abundant circRNAs (n = 279) between risk class 1 and 2 (Wilcoxon rank sum test). Circular-to-linear ratios are obtained by dividing the number of circular reads with the number of linear reads. The log2 Fold Changes are plotted against the negative log10 P-values. Colors indicate if observed changes are significant (red) or not (grey) (BH correction with FDR < 0.1). e Average circular expression of abundant circRNAs (n = 252) in four non-malignant bladder cancer (BC) cell lines (Nhutert, HCV29, HT1197, and RT4) and four metastatic BC cell lines (J82, HT-1376, T24, and UMUC3). f Circular expression of abundant circRNAs (n = 160) in the the cytoplasmic and nuclear cellular compartments of the cell line FL3. g Expression of abundant circRNAs (n = 276) across 113 tissue samples. Number of tissue samples expressing the circRNA versus total number of reads supporting the circRNA across all tissue samples. h Mutation analysis of abundant circRNAs and intronic flanking regions by ncdDetect across a cohort of 507 pan-cancer genomes. CircRNAs on chromosome X and Y were not evaluated. Observed number of mutations versus expected number of mutations. The entire circRNA region as well as the first 10 bp of the intronic flanking regions were analyzed. Shapes indicate flanking intronic regions (triangle) and circRNAs (circles). Colors indicate if observed changes are nominally significant (red) or not (grey) (P < 0.05, ncdDetect)
