Fig. 2

Putative regulators of intron retention in breast cancer. A Scatterplot showing differentially retained introns (dIR) between MCF7 and MCF10A cells. Genes associated with significant dIR events (p-adj. < 0.001) and IR ratios > 0.4 are labelled. Given the low number of replicates (n = 2), we have applied the Audic and Claverie test [29] for significance testing. B Enriched GO terms in genes positively correlated with IR. Circle size of the GO terms (orange) is denoted by the number of genes associated with them. C RNA splicing associated genes that most highly correlate with the number of IR events in each sample. The scatterplots illustrate the log10 number of IR events against the log10 normalized read counts for each gene. D Genes that most strongly anti-correlate with the number of IR events in each sample