2017
Network Clustering Analysis Using Mixture Exponential-Family Random Graph Models and Its Application in Genetic Interaction Data
Wang Y, Fang H, Yang D, Zhao H, Deng M. Network Clustering Analysis Using Mixture Exponential-Family Random Graph Models and Its Application in Genetic Interaction Data. IEEE/ACM Transactions On Computational Biology And Bioinformatics 2017, 16: 1743-1752. PMID: 28858811, DOI: 10.1109/tcbb.2017.2743711.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsCluster AnalysisComputational BiologyGene Regulatory NetworksGenotypeModels, StatisticalPhenotypeYeastsConceptsExponential-family random graph modelsRandom graph modelsGraph modelStatistical network modelsHeterogeneity of networksLarge-scale genetic interaction networksReal social networksERGM parametersSubset of nodesOnline graphStatistical modelData sizeObserved networkEM algorithmNetwork informationGraph nodesMixture problemSocial networksFlexible wayNetwork modelNetwork clustersClassical methodsIncredible setInteraction dataNetworkOn Joint Estimation of Gaussian Graphical Models for Spatial and Temporal Data
Lin Z, Wang T, Yang C, Zhao H. On Joint Estimation of Gaussian Graphical Models for Spatial and Temporal Data. Biometrics 2017, 73: 769-779. PMID: 28099997, PMCID: PMC5515703, DOI: 10.1111/biom.12650.Peer-Reviewed Original ResearchConceptsGaussian graphical modelsTemporal dataGraphical modelsComplex data structuresJoint estimationMarkov random field modelRandom field modelParallel computingSelection consistencyData structureStatistical inferenceNeighborhood selection methodTemporal dependenciesEfficient algorithmIndividual networksMultiple groupsSpatial dataModel convergesNetwork estimationField modelSelection methodNetworkPosterior probabilitySimulation studyImproved estimation
2016
CCor: A Whole Genome Network-Based Similarity Measure Between Two Genes
Hu Y, Zhao H. CCor: A Whole Genome Network-Based Similarity Measure Between Two Genes. Biometrics 2016, 72: 1216-1225. PMID: 26953524, PMCID: PMC5016231, DOI: 10.1111/biom.12508.Peer-Reviewed Original ResearchMeSH KeywordsAlgorithmsComputational BiologyGene Expression ProfilingGene Regulatory NetworksGenomeModels, Statistical
2014
GPA: A Statistical Approach to Prioritizing GWAS Results by Integrating Pleiotropy and Annotation
Chung D, Yang C, Li C, Gelernter J, Zhao H. GPA: A Statistical Approach to Prioritizing GWAS Results by Integrating Pleiotropy and Annotation. PLOS Genetics 2014, 10: e1004787. PMID: 25393678, PMCID: PMC4230845, DOI: 10.1371/journal.pgen.1004787.Peer-Reviewed Original ResearchConceptsGenome-wide association studiesFunctional annotationGWAS datasetsAnnotation informationStatistical approachMultiple GWAS datasetsGenome-wide markersPowerful statistical methodsSingle-phenotype analysisCentral nervous system genesRisk variantsNervous system genesGenotype-Tissue Expression (GTEx) databaseComplex diseasesGWAS data setsSignificant pleiotropic effectsCommon risk basisDifferent complex diseasesDNase-seq dataCell linesStatistical inferenceGenetic architectureGWAS hitsGWAS resultsNovel statistical approach
2012
iFad: an integrative factor analysis model for drug-pathway association inference†
Ma H, Zhao H. iFad: an integrative factor analysis model for drug-pathway association inference†. Bioinformatics 2012, 28: 1911-1918. PMID: 22581178, PMCID: PMC3389771, DOI: 10.1093/bioinformatics/bts285.Peer-Reviewed Original Research
2000
Linkage disequilibrium mapping in populations of variable size using the decay of haplotype sharing and a stepwise‐mutation model
Zhang S, Zhao H. Linkage disequilibrium mapping in populations of variable size using the decay of haplotype sharing and a stepwise‐mutation model. Genetic Epidemiology 2000, 19: s99-s105. PMID: 11055377, DOI: 10.1002/1098-2272(2000)19:1+<::aid-gepi15>3.0.co;2-1.Peer-Reviewed Original Research
1999
A more powerful method to evaluate p‐values in GENEHUNTER
Zhao H, Sheffield L, Pakstis A, Knauert M, Kidd K. A more powerful method to evaluate p‐values in GENEHUNTER. Genetic Epidemiology 1999, 17: s415-s420. PMID: 10597472, DOI: 10.1002/gepi.1370170770.Peer-Reviewed Original Research
1995
Relative Efficiencies of χ2 Models of Recombination for Exclusion Mapping and Gene Ordering
Goldstein D, Zhao H, Speed T. Relative Efficiencies of χ2 Models of Recombination for Exclusion Mapping and Gene Ordering. Genomics 1995, 27: 265-273. PMID: 7557991, DOI: 10.1006/geno.1995.1041.Peer-Reviewed Original Research