Article

PhyloFunc: Phylogeny-informed Functional Distance as a New Ecological Metric for Metaproteomic Data Analysis

2024-06-02

Abstract excerpt

<h4>Background</h4> Beta-diversity is a fundamental ecological metric for exploring dissimilarities between microbial communities. On the functional dimension, metaproteomics data can be used to quantify beta-diversity to understand how microbial community functional profiles vary under different environmental conditions. Conventional approaches to metaproteomic functional beta-diversity often treat protein funct...

Topics

Open a Topic to create a Post that cites this publication.

Identifiers and source

Literature Corpus work: 3348b9ac-80c0-5193-af5a-d9cfa2fc538f
DOI: 10.1101/2024.05.28.596184

Open publication

Related research

Semantic proximity does not establish scientific evidence.

Click a neighbor to travelStep 1 · 12 closest

PhyloFunc: Phylogeny-informed Functional Distance as a New Ecological Metric for Metaproteomic Data AnalysisDOI 10.1101/2024.05.28.596184Read

Incorporating genome-based phylogeny and functional similarity into diversity assessments helps to resolve a global collection of human gut metagenomesSemantic proximity Read

Phylogenize2: robust phylogenetic methods link genes to phenotypes across host-associated and environmental microbiomesSemantic proximity Read

Emergent Functional Organization of Gut Microbiomes in Health and DiseasesSemantic proximity Read

Revealing Protein-Level Functional Redundancy in the Human Gut Microbiome using Ultra-deep MetaproteomicsSemantic proximity Read

TaxSEA: an R package for rapid interpretation of differential abundance analysis outputSemantic proximity Read

Revealing Protein-Level Functional Redundancy in the Human Gut Microbiome using Ultra-deep MetaproteomicsSemantic proximity Read

Metaproteomics as a tool for studying the protein landscape of human-gut bacterial speciesSemantic proximity Read

<i>phylogenize:</i> correcting for phylogeny reveals genes associated with microbial distributionsSemantic proximity Read

Compositionally Aware Phylogenetic Beta-Diversity Measures Better Resolve Microbiomes Associated with Phenotype.Semantic proximity Read

Learning functional groups in complex microbiomesSemantic proximity Read

Associating microbiome composition with environmental covariates using generalized UniFrac distancesSemantic proximity Read

Phylogeny-corrected identification of microbial gene families relevant to human gut colonizationSemantic proximity Read