Cross-species protein sequence and gene structure prediction with fine-tuned Webscipio 2.0 and Scipio.

ABSTRACT:

Background

Obtaining transcripts of homologs of closely related organisms and retrieving the reconstructed exon-intron patterns of the genes is a very important process during the analysis of the evolution of a protein family and the comparative analysis of the exon-intron structure of a certain gene from different species. Due to the ever-increasing speed of genome sequencing, the gap to genome annotation is growing. Thus, tools for the correct prediction and reconstruction of genes in related organisms become more and more important. The tool Scipio, which can also be used via the graphical interface WebScipio, performs significant hit processing of the output of the Blat program to account for sequencing errors, missing sequence, and fragmented genome assemblies. However, Scipio

SUBMITTER: Hatje K 

PROVIDER: S-EPMC3162530 | biostudies-literature | 2011 Jul

REPOSITORIES: biostudies-literature