Fig. 2: HNRNPC binding impacts the translation and APA of its targets.

a, Bottom: volcano plot showing the distribution of changes in TER (logTER) in sgHNRNPC compared with sgControl MDA-MB-231 cells. Statistically significant (logistic regression, P < 0.01) observations are highlighted in orange. Top: enrichment of the HNRNPC targets as a function of logTER between sgHNRNPC and sgControl cells. mRNAs are divided into equally populated bins according to logTER (dashed vertical lines delineate the bins); the y axis shows the frequency of the HNRNPC targets that we identified in each bin (dashed horizontal line denotes the average HNRNPC target frequency across all transcripts). Bins with significant enrichment (logistic regression, FDR <0.05; red) or depletion (blue) of HNRNPC targets are denoted with a black border. Also included are mutual information (MI) values and their associated z-scores. b, Heat maps showing the enrichment of canonical poly(A) signals in the vicinity (500 nt flanking) of HNRNPC binding peaks in 3′ UTRs (as determined by CLIP-seq). The bolded border denotes a statistically significant enrichment (hypergeometric test, corrected P < 0.05; red). MI values and associated z-scores are shown. c, Venn diagram showing the overlap between HNRNPC 3′ UTR target mRNAs and mRNAs showing APA. P value calculated using hypergeometric test. d, Bottom: volcano plot showing distribution of changes in APA ratio (logAPAR; for detailed description, see Methods) in MDA-LM2 compared with MDA-MB-231 cells. Top: enrichment of the HNRNPC-bound 3′ UTRs as a function of APAR between MDA-LM2 and parental MDA-MB-231 cells; statistics as in a. e, Bottom: volcano plot showing distribution of changes in APAR in sgHNRNPC compared with sgControl cells. Top: enrichment of the HNRNPC-bound 3′ UTRs as a function of APAR between sgHNRNPC and sgControl cells; statistics as in a.