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.