Accurate genome relative abundance estimation for closely related species in a metagenomic sample.

ABSTRACT:

Background

Metagenomics has a great potential to discover previously unattainable information about microbial communities. An important prerequisite for such discoveries is to accurately estimate the composition of microbial communities. Most of prevalent homology-based approaches utilize solely the results of an alignment tool such as BLAST, limiting their estimation accuracy to high ranks of the taxonomy tree.

Results

We developed a new homology-based approach called Taxonomic Analysis by Elimination and Correction (TAEC), which utilizes the similarity in the genomic sequence in addition to the result of an alignment tool. The proposed method is comprehensively tested on various simulated benchmark datasets of diverse complexity of microbial structure. Compared with other

SUBMITTER: Sohn MB 

PROVIDER: S-EPMC4131027 | biostudies-literature | 2014 Jul

REPOSITORIES: biostudies-literature