Featured Publications
Statistical Methods for Analyzing Tree-Structured Microbiome Data
Wang T, Zhao H. Statistical Methods for Analyzing Tree-Structured Microbiome Data. Frontiers In Probability And The Statistical Sciences 2021, 193-220. DOI: 10.1007/978-3-030-73351-3_8.Peer-Reviewed Original ResearchStatistical methodsOnly relative informationMicrobiome data analysisMicrobiome dataEmpirical Bayes estimationCompositional predictorsBayes estimationComputational challengesRelative informationDimension reductionAbundance matrixTaxa countsMultinomial modelMicrobiome datasetsPhylogenetic informationMicrobial taxaPhylogenetic treeSequencing technologiesOriginal ecosystemMicrobial compositionOrders of magnitudeMatrixExperimental methodsLibrary sizeZeros
2024
Statistical methods for assessing the effects of de novo variants on birth defects
Xie Y, Wu R, Li H, Dong W, Zhou G, Zhao H. Statistical methods for assessing the effects of de novo variants on birth defects. Human Genomics 2024, 18: 25. PMID: 38486307, PMCID: PMC10938830, DOI: 10.1186/s40246-024-00590-z.Peer-Reviewed Original ResearchConceptsDe novo variantsAnalyzed de novo variantsDevelopment of next-generation sequencing technologiesNext-generation sequencing technologiesSequencing technologiesImprove statistical powerGenetic heterogeneitySequenced samplesStatistical powerBirth defectsDiseased individualsLow occurrenceCongenital heart diseaseVariantsGenesDeleterious effectsSequenceGeneral workflowStatistical methods
2022
phyloMDA: an R package for phylogeny-aware microbiome data analysis
Liu T, Zhou C, Wang H, Zhao H, Wang T. phyloMDA: an R package for phylogeny-aware microbiome data analysis. BMC Bioinformatics 2022, 23: 213. PMID: 35668363, PMCID: PMC9169257, DOI: 10.1186/s12859-022-04744-5.Peer-Reviewed Original ResearchConceptsHost-associated microbial communitiesShared evolutionary historyMicrobiome data analysisEvolutionary historyPhylogenetic informationPhylogenetic treeMicrobial communitiesR packageSequencing technologiesAbundance dataMicrobial compositionRelative abundanceMicrobiome dataSample sitesUser-friendly toolMultivariate abundance dataAbundanceUnique opportunityUnprecedented scaleDifferent patternsTrees
2017
Constructing Predictive Microbial Signatures at Multiple Taxonomic Levels
Wang T, Zhao H. Constructing Predictive Microbial Signatures at Multiple Taxonomic Levels. Journal Of The American Statistical Association 2017, 112: 1022-1031. DOI: 10.1080/01621459.2016.1270213.Peer-Reviewed Original ResearchBacterial taxaTaxonomic levelsMultiple taxonomic levelsDifferent taxonomic levelsDNA sequencing technologiesHuman microbiome studiesPhylogenetic treeHost phenotypeSequencing technologiesNormal human physiologyTaxaHuman microbiomeMicrobial signaturesMicrobiome studiesMicrobiome data analysisImportant groupMicrobiome dataHigh-dimensional compositional dataHuman physiologyRecent advancesMicrobesRapid advancesMajor goalMicrobiomePhenotype
2014
Statistical Methods for the Analysis of Next Generation Sequencing Data from Paired Tumor-Normal Samples
Chen M, Hou L, Zhao H. Statistical Methods for the Analysis of Next Generation Sequencing Data from Paired Tumor-Normal Samples. Frontiers In Probability And The Statistical Sciences 2014, 379-404. DOI: 10.1007/978-3-319-07212-8_19.Peer-Reviewed Original ResearchStatistical methodsSingle nucleotide alterationsSequencing dataNext-generation sequencing technologiesGeneration sequencing technologyNext-generation sequencing dataGeneration sequencing dataGenomic eraNormal sequencing dataTumor-normal samplesCancer genomesSequencing technologiesSomatic variationNucleotide alterationsNumber alterationsUnprecedented resolutionDNA levelsGenomeAlterations