MSAIndelFR: a scheme for multiple protein sequence alignment using information on indel flanking regions.

ABSTRACT:

Background

The alignment of multiple protein sequences is one of the most commonly performed tasks in bioinformatics. In spite of considerable research and efforts that have been recently deployed for improving the performance of multiple sequence alignment (MSA) algorithms, finding a highly accurate alignment between multiple protein sequences is still a challenging problem.

Results

We propose a novel and efficient algorithm called, MSAIndelFR, for multiple sequence alignment using the information on the predicted locations of IndelFRs and the computed average log-loss values obtained from IndelFR predictors, each of which is designed for a different protein fold. We demonstrate that the introduction of a new variable gap penalty function based on the predicted locations of

SUBMITTER: Al-Shatnawi M 

PROVIDER: S-EPMC4657235 | biostudies-literature | 2015 Nov

REPOSITORIES: biostudies-literature