Featured Publications
Differential abundance analysis for microbial marker-gene surveys
Paulson J, Stine O, Bravo H, Pop M. Differential abundance analysis for microbial marker-gene surveys. Nature Methods 2013, 10: 1200-1202. PMID: 24076764, PMCID: PMC4010126, DOI: 10.1038/nmeth.2658.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsAnimalsArea Under CurveCluster AnalysisComputer SimulationDatabases, GeneticGene Expression ProfilingGenetic MarkersGenetic VariationHumansIntestinesMetagenomicsMiceMicrobiotaModels, GeneticModels, StatisticalNormal DistributionPhenotypeRNA, Ribosomal, 16SSequence Analysis, DNASoftware
2021
Multivariable association discovery in population-scale meta-omics studies
Mallick H, Rahnavard A, McIver L, Ma S, Zhang Y, Nguyen L, Tickle T, Weingart G, Ren B, Schwager E, Chatterjee S, Thompson K, Wilkinson J, Subramanian A, Lu Y, Waldron L, Paulson J, Franzosa E, Bravo H, Huttenhower C. Multivariable association discovery in population-scale meta-omics studies. PLOS Computational Biology 2021, 17: e1009442. PMID: 34784344, PMCID: PMC8714082, DOI: 10.1371/journal.pcbi.1009442.Peer-Reviewed Original ResearchMeSH KeywordsComputational BiologyComputer SimulationGastrointestinal MicrobiomeHumansInflammatory Bowel DiseasesMultivariate AnalysisConceptsMicrobial community measurementsMeta-omics studiesMicrobial community featuresMulti-omics datasetsControlling false discoveriesLandscape of inflammatory bowel diseaseHuman microbiomeMaAsLinMulti-omicsOmics profilesFalse discoveriesCommunity measuresMicrobiomeEnvironmental conditionsInflammatory bowel diseaseCommunity featuresHealth outcomesAssociation discoveryMultivariate associationsMultiple covariatesEpidemiological studiesLongitudinal designObservational studyStatistical powerZero-inflation