A Massively Parallel Sequence Similarity Search for Metagenomic Sequencing Data.

ABSTRACT: Sequence similarity searches have been widely used in the analyses of metagenomic sequencing data. Finding homologous sequences in a reference database enables the estimation of taxonomic and functional characteristics of each query sequence. Because current metagenomic sequencing data consist of a large number of nucleotide sequences, the time required for sequence similarity searches account for a large proportion of the total time. This time-consuming step makes it difficult to perform large-scale analyses. To analyze large-scale metagenomic data, such as those found in the human oral microbiome, we developed GHOST-MP (Genome-wide HOmology Search Tool on Massively Parallel system), a parallel sequence similarity search tool for massively parallel computing systems. This tool uses a fast

SUBMITTER: Kakuta M 

PROVIDER: S-EPMC5666806 | biostudies-literature | 2017 Oct

REPOSITORIES: biostudies-literature