REPAC: analysis of alternative polyadenylation from RNA-sequencing data.

ABSTRACT: Alternative polyadenylation (APA) is an important post-transcriptional mechanism that has major implications in biological processes and diseases. Although specialized sequencing methods for polyadenylation exist, availability of these data are limited compared to RNA-sequencing data. We developed REPAC, a framework for the analysis of APA from RNA-sequencing data. Using REPAC, we investigate the landscape of APA caused by activation of B cells. We also show that REPAC is faster than alternative methods by at least 7-fold and that it scales well to hundreds of samples. Overall, the REPAC method offers an accurate, easy, and convenient solution for the exploration of APA.

SUBMITTER: Imada EL 

PROVIDER: S-EPMC9912678 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature