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Lookup NU author(s): Gerald Hysenaj,
Professor David Elliott
This work is licensed under a Creative Commons Attribution 4.0 International License (CC BY 4.0).
© 2018 The Author(s). Despite the many approaches to study differential splicing from RNA-seq, many challenges remain unsolved, including computing capacity and sequencing depth requirements. Here we present SUPPA2, a new method that addresses these challenges, and enables streamlined analysis across multiple conditions taking into account biological variability. Using experimental and simulated data, we show that SUPPA2 achieves higher accuracy compared to other methods, especially at low sequencing depth and short read length. We use SUPPA2 to identify novel Transformer2-regulated exons, novel microexons induced during differentiation of bipolar neurons, and novel intron retention events during erythroblast differentiation.
Author(s): Trincado JL, Entizne JC, Hysenaj G, Singh B, Skalic M, Elliott DJ, Eyras E
Publication type: Article
Publication status: Published
Journal: Genome Biology
Online publication date: 23/03/2018
Acceptance date: 02/03/2018
Date deposited: 10/04/2018
ISSN (print): 1474-7596
ISSN (electronic): 1474-760X
Publisher: BioMed Central Ltd.
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