Transcriptome structure variability in Saccharomyces cerevisiae strains determined with a newly developed assembly software.

ABSTRACT:

Background

RNA-seq studies have an important role for both large-scale analysis of gene expression and for transcriptome reconstruction. However, the lack of software specifically developed for the analysis of the transcriptome structure in lower eukaryotes, has so far limited the comparative studies among different species and strains.

Results

In order to fill this gap, an innovative software called ORA (Overlapped Reads Assembler) was developed. This software allows a simple and reliable analysis of the transcriptome structure in organisms with a low number of introns. It can also determine the size and the position of the untranslated regions (UTR) and of polycistronic transcripts. As a case study, we analyzed the transcriptional landscape of six S. cerevisiae strains in

SUBMITTER: Sardu A 

PROVIDER: S-EPMC4302112 | biostudies-literature | 2014 Dec

REPOSITORIES: biostudies-literature