GutCyc
Posted on 2016-07-31 - 22:43 authored by Aria S Hahn
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 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
ptools software, empowering researchers and clinicians
interested in visualizing and interpreting metabolic pathways
encoded by the human gut microbiome. For the first time, GutCyc
provides consistent annotations and metabolic pathway predictions,
making possible comparative community analyses between health and
disease states in inflammatory bowel disease, Crohn's disease, and
type 2 diabetes. GutCyc data products are searchable online, or
may be downloaded and explored locally using MetaPathways and
ptools.
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. https://doi.org/10.6084/m9.figshare.c.3283562.v2
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AUTHORS (8)
TA
Tomer Altman
KK
Kishori M Konwar
NH
Niels W Hanson
DK
Dongjae Kim
DA
David A Relman
DD
David L Dill
SJ
Steven J Hallam