A geographically-diverse collection of 418 human gut microbiome pathway genome databases.

ABSTRACT: Advances in high-throughput sequencing are reshaping how we perceive microbial communities inhabiting the human body, with implications for therapeutic interventions. Several large-scale datasets derived from hundreds of human microbiome samples sourced from multiple studies are now publicly available. However, idiosyncratic data processing methods between studies introduce systematic differences that confound comparative analyses. To overcome these challenges, we developed GutCyc, a compendium of environmental pathway genome databases (ePGDBs) constructed from 418 assembled human microbiome datasets using MetaPathways, enabling reproducible functional metagenomic annotation. We also generated metabolic network reconstructions for each metagenome using the Pathway Tools software, empowerin

SUBMITTER: Hahn AS 

PROVIDER: S-EPMC5387927 | biostudies-literature | 2017 Apr

REPOSITORIES: biostudies-literature