Prediction of alternative isoforms from exon expression levels in RNA-Seq experiments.

ABSTRACT: Alternative splicing, polyadenylation of pre-messenger RNA molecules and differential promoter usage can produce a variety of transcript isoforms whose respective expression levels are regulated in time and space, thus contributing specific biological functions. However, the repertoire of mammalian alternative transcripts and their regulation are still poorly understood. Second-generation sequencing is now opening unprecedented routes to address the analysis of entire transcriptomes. Here, we developed methods that allow the prediction and quantification of alternative isoforms derived solely from exon expression levels in RNA-Seq data. These are based on an explicit statistical model and enable the prediction of alternative isoforms within or between conditions using any known gene annota

SUBMITTER: Richard H 

PROVIDER: S-EPMC2879520 | biostudies-literature | 2010 Jun

REPOSITORIES: biostudies-literature