Integrating phylogenetic and functional data in microbiome studies.

ABSTRACT:

Motivation

Microbiome functional data are frequently analyzed to identify associations between microbial functions (e.g. genes) and sample groups of interest. However, it is challenging to distinguish between different possible explanations for variation in community-wide functional profiles by considering functions alone. To help address this problem, we have developed POMS, a package that implements multiple phylogeny-aware frameworks to more robustly identify enriched functions.

Results

The key contribution is an extended balance-tree workflow that incorporates functional and taxonomic information to identify functions that are consistently enriched in sample groups across independent taxonomic lineages. Our package also includes a workflow for running phylogenetic regres

SUBMITTER: Douglas GM 

PROVIDER: S-EPMC9665866 | biostudies-literature | 2022 Nov

REPOSITORIES: biostudies-literature