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2015 ; 31
(20
): 3368-70
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MetaQuery: a web server for rapid annotation and quantitative analysis of
specific genes in the human gut microbiome
#MMPMID26104745
Nayfach S
; Fischbach MA
; Pollard KS
Bioinformatics
2015[Oct]; 31
(20
): 3368-70
PMID26104745
show ga
Microbiome researchers frequently want to know how abundant a particular
microbial gene or pathway is across different human hosts, including its
association with disease and its co-occurrence with other genes or microbial
taxa. With thousands of publicly available metagenomes, these questions should be
easy to answer. However, computational barriers prevent most researchers from
conducting such analyses. We address this problem with MetaQuery, a web
application for rapid and quantitative analysis of specific genes in the human
gut microbiome. The user inputs one or more query genes, and our software returns
the estimated abundance of these genes across 1267 publicly available fecal
metagenomes from American, European and Chinese individuals. In addition, our
application performs downstream statistical analyses to identify features that
are associated with gene variation, including other query genes (i.e. gene
co-variation), taxa, clinical variables (e.g. inflammatory bowel disease and
diabetes) and average genome size. The speed and accessibility of MetaQuery are a
step toward democratizing metagenomics research, which should allow many
researchers to query the abundance and variation of specific genes in the human
gut microbiome. AVAILABILITY AND IMPLEMENTATION: http://metaquery.docpollard.org.
CONTACT: snayfach@gmail.comS UPPLEMENTARY INFORMATION: Supplementary data are
available at Bioinformatics online.