Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets.
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ABSTRACT:
SUBMITTER: Washburne AD
PROVIDER: S-EPMC5345826 | biostudies-literature | 2017
REPOSITORIES: biostudies-literature
Publications
Phylogenetic factorization of compositional data yields lineage-level associations in microbiome datasets.
Washburne Alex D AD Silverman Justin D JD Leff Jonathan W JW Bennett Dominic J DJ Darcy John L JL Mukherjee Sayan S Fierer Noah N David Lawrence A LA
PeerJ 20170209
Marker gene sequencing of microbial communities has generated big datasets of microbial relative abundances varying across environmental conditions, sample sites and treatments. These data often come with putative phylogenies, providing unique opportunities to investigate how shared evolutionary history affects microbial abundance patterns. Here, we present a method to identify the phylogenetic factors driving patterns in microbial community composition. We use the method, "phylofactorization," ...[more]
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