Metagenomic biomarker discovery and explanation.

Genome Biol
Authors
Keywords
Abstract

This study describes and validates a new method for metagenomic biomarker discovery by way of class comparison, tests of biological consistency and effect size estimation. This addresses the challenge of finding organisms, genes, or pathways that consistently explain the differences between two or more microbial communities, which is a central problem to the study of metagenomics. We extensively validate our method on several microbiomes and a convenient online interface for the method is provided at http://huttenhower.sph.harvard.edu/lefse/.

Year of Publication
2011
Journal
Genome Biol
Volume
12
Issue
6
Pages
R60
Date Published
2011 Jun 24
ISSN
1474-760X
URL
DOI
10.1186/gb-2011-12-6-r60
PubMed ID
21702898
PubMed Central ID
PMC3218848
Links
Grant list
AI078942 / AI / NIAID NIH HHS / United States
K08 AI078942 / AI / NIAID NIH HHS / United States
R01 CA154426 / CA / NCI NIH HHS / United States
R21 DE017106-02 / DE / NIDCR NIH HHS / United States
1R01HG005969 / HG / NHGRI NIH HHS / United States
R01 HG005969 / HG / NHGRI NIH HHS / United States
R21 DE017106 / DE / NIDCR NIH HHS / United States
DE017106 / DE / NIDCR NIH HHS / United States