WImpiBLAST: web interface for mpiBLAST to help biologists perform large-scale annotation using high performance computing.

ABSTRACT: The function of a newly sequenced gene can be discovered by determining its sequence homology with known proteins. BLAST is the most extensively used sequence analysis program for sequence similarity search in large databases of sequences. With the advent of next generation sequencing technologies it has now become possible to study genes and their expression at a genome-wide scale through RNA-seq and metagenome sequencing experiments. Functional annotation of all the genes is done by sequence similarity search against multiple protein databases. This annotation task is computationally very intensive and can take days to obtain complete results. The program mpiBLAST, an open-source parallelization of BLAST that achieves superlinear speedup, can be used to accelerate large-scale annotation

SUBMITTER: Sharma P 

PROVIDER: S-EPMC4076281 | biostudies-literature | 2014

REPOSITORIES: biostudies-literature