Fig. 4
From: QAPA: a new method for the systematic analysis of alternative polyadenylation from RNA-seq data
APA changes during ND are rarely correlated with steady-state mRNA expression changes. a Comparison between mRNA expression changes (y-axis) and APA changes (x-axis) for 3825 analyzed genes. Lengthening 3′ UTRs are indicated on the right (∆PPAU > 20), while shortening 3′ UTRs are on the left (∆PPAU < − 20). Genes with statistically significant differential up- or down-regulation are indicated by red and blue dots, respectively (|log2 fold change| > 1.5, FDR < 1%). Examples of lengthening 3′ UTRs from Fig. 3 are labeled. Dotted horizontal lines indicate log2 fold change thresholds, while dotted vertical lines indicate ∆PPAU thresholds. b Bar plot showing distribution of lengthening 3′ UTRs across classes based on isoform expression changes between proximal and distal 3′ UTRs: Switch, Long-Up, or Short-Down