A Fast Alignment-Free Approach for De Novo Detection of Protein Conserved Regions.

ABSTRACT:

Background

Identifying conserved regions in protein sequences is a fundamental operation, occurring in numerous sequence-driven analysis pipelines. It is used as a way to decode domain-rich regions within proteins, to compute protein clusters, to annotate sequence function, and to compute evolutionary relationships among protein sequences. A number of approaches exist for identifying and characterizing protein families based on their domains, and because domains represent conserved portions of a protein sequence, the primary computation involved in protein family characterization is identification of such conserved regions. However, identifying conserved regions from large collections (millions) of protein sequences presents significant challenges.

Methods

In this paper we p

SUBMITTER: Abnousi A 

PROVIDER: S-EPMC4995020 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature