Event Analysis: Using Transcript Events To Improve Estimates of Abundance in RNA-seq Data.

ABSTRACT: Alternative splicing leverages genomic content by allowing the synthesis of multiple transcripts and, by implication, protein isoforms, from a single gene. However, estimating the abundance of transcripts produced in a given tissue from short sequencing reads is difficult and can result in both the construction of transcripts that do not exist, and the failure to identify true transcripts. An alternative approach is to catalog the events that make up isoforms (splice junctions and exons). We present here the Event Analysis (EA) approach, where we project transcripts onto the genome and identify overlapping/unique regions and junctions. In addition, all possible logical junctions are assembled into a catalog. Transcripts are filtered before quantitation based on simple measures: the proport

SUBMITTER: Newman JRB 

PROVIDER: S-EPMC6118309 | biostudies-literature | 2018 Aug

REPOSITORIES: biostudies-literature