Assisted transcriptome reconstruction and splicing orthology.

ABSTRACT:

Background

Transcriptome reconstruction, defined as the identification of all protein isoforms that may be expressed by a gene, is a notably difficult computational task. With real data, the best methods based on RNA-seq data identify barely 21 % of the expressed transcripts. While waiting for algorithms and sequencing techniques to improve - as has been strongly suggested in the literature - it is important to evaluate assisted transcriptome prediction; this is the question of how alternative transcription in one species performs as a predictor of protein isoforms in another relatively close species. Most evidence-based gene predictors use transcripts from other species to annotate a genome, but the predictive power of procedures that use exclusively transcripts from external spec

SUBMITTER: Blanquart S 

PROVIDER: S-EPMC5123294 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature