GutCyc

Published on 2016-07-31T22:43:46Z (GMT) by Aria S Hahn
<div>Advances in high-throughput sequencing are reshaping how we</div><div>    perceive microbial communities inhabiting the human body, with</div><div>    implications for therapeutic interventions. Several large-scale</div><div>    datasets derived from hundreds of human microbiome samples sourced</div><div>    from multiple studies are now publicly available. However,</div><div>    idiosyncratic data processing methods between studies introduce</div><div>    systematic differences that confound comparative analyses. To</div><div>    overcome these challenges, we developed GutCyc, a compendium of</div><div>    environmental pathway genome databases constructed from 418</div><div>    assembled human microbiome datasets using MetaPathways, enabling</div><div>    reproducible functional metagenomic annotation. We also generated</div><div>    metabolic network reconstructions for each metagenome using the</div><div>    ptools software, empowering researchers and clinicians</div><div>    interested in visualizing and interpreting metabolic pathways</div><div>    encoded by the human gut microbiome. For the first time, GutCyc</div><div>    provides consistent annotations and metabolic pathway predictions,</div><div>    making possible comparative community analyses between health and</div><div>    disease states in inflammatory bowel disease, Crohn's disease, and</div><div>    type 2 diabetes. GutCyc data products are searchable online, or</div><div>    may be downloaded and explored locally using MetaPathways and</div><div>    ptools.</div>

Cite this collection

Hahn, Aria S; Altman, Tomer; Konwar, Kishori M; Hanson, Niels W; Kim, Dongjae; A Relman, David; et al. (2016): GutCyc. figshare. Collection.