2024
Bayesian pathway analysis over brain network mediators for survival data
Tian X, Li F, Shen L, Esserman D, Zhao Y. Bayesian pathway analysis over brain network mediators for survival data. Biometrics 2024, 80: ujae132. PMID: 39530270, PMCID: PMC11555425, DOI: 10.1093/biomtc/ujae132.Peer-Reviewed Original ResearchConceptsAccelerated failure time modelFailure time modelBrain connectivityAlzheimer's Disease Neuroimaging Initiative studyMaximum information extractionResponse regressionBayesian approachInformation extractionTime modelSurvival dataNoisy componentsUnique edgeWhite matter fiber tractsNetwork configurationBrain networksInterconnection networksNetworkNetwork mediatorsBrain
2022
Sex-specific genetic association between psychiatric disorders and cognition, behavior and brain imaging in children and adults
Gui Y, Zhou X, Wang Z, Zhang Y, Wang Z, Zhou G, Zhao Y, Liu M, Lu H, Zhao H. Sex-specific genetic association between psychiatric disorders and cognition, behavior and brain imaging in children and adults. Translational Psychiatry 2022, 12: 347. PMID: 36028495, PMCID: PMC9418275, DOI: 10.1038/s41398-022-02041-6.Peer-Reviewed Original ResearchConceptsCognitive functionFluid intelligenceCognitive traitsAdolescent Brain Cognitive Development (ABCD) studyPsychiatric disordersCognitive Development StudyMediation effectMost psychiatric disordersPolygenic risk scoresBrain functionBrain structuresBrain imagingEarly etiologySex differencesDevelopment studiesPsychiatric traitsChildrenIntelligenceDisordersSchizophreniaGenetic riskAdultsTraitsCognitionAutismBayesian network mediation analysis with application to the brain functional connectome
Zhao Y, Chen T, Cai J, Lichenstein S, Potenza M, Yip S. Bayesian network mediation analysis with application to the brain functional connectome. Statistics In Medicine 2022, 41: 3991-4005. PMID: 35795965, PMCID: PMC10131252, DOI: 10.1002/sim.9488.Peer-Reviewed Original ResearchConceptsStochastic block modelBayesian paradigmBrain functional connectomeBlock modelConnectivity weightsFunctional connectomeNetwork measurementsEffect componentApproach applicationBlock allocationOpioid abstinenceAnalytic approachNetwork neurosciencePractical illustrationTherapeutic interventionsMediation analysisNeural circuitsNetwork structureBrain functioningMediatorsFunctional networksFeature selectionApplicationsModelNetworkUsing machine learning to predict heavy drinking during outpatient alcohol treatment
Roberts W, Zhao Y, Verplaetse T, Moore KE, Peltier MR, Burke C, Zakiniaeiz Y, McKee S. Using machine learning to predict heavy drinking during outpatient alcohol treatment. Alcohol Clinical And Experimental Research 2022, 46: 657-666. PMID: 35420710, PMCID: PMC9180421, DOI: 10.1111/acer.14802.Peer-Reviewed Original ResearchConceptsAlcohol use disorderHeavy drinkingTreatment outcomesInvasive assessment methodsOutpatient AUD treatmentLast monthOutpatient alcohol treatmentMultisite clinical trialAccurate clinical predictionsHeavy alcohol useSex differencesBi-weekly sessionsAlcohol treatment outcomesPatient characteristicsClinical outcomesClinical trialsClinical dataStratified analysisEffective treatmentPsychiatric disordersUse disordersAUD treatmentSubstantial sex differencesAlcohol treatmentFirst monthBayesian Interaction Selection Model for Multimodal Neuroimaging Data Analysis
Zhao Y, Wu B, Kang J. Bayesian Interaction Selection Model for Multimodal Neuroimaging Data Analysis. Biometrics 2022, 79: 655-668. PMID: 35220581, PMCID: PMC9418386, DOI: 10.1111/biom.13648.Peer-Reviewed Original ResearchIdentifying imaging genetic associations via regional morphometricity estimation.
Bao J, Wen Z, Kim M, Saykin AJ, Thompson PM, Zhao Y, Shen L. Identifying imaging genetic associations via regional morphometricity estimation. Biocomputing 2022, 27: 97-108. PMID: 34890140, PMCID: PMC8730533.Peer-Reviewed Original ResearchIdentifying highly heritable brain amyloid phenotypes through mining Alzheimer's imaging and sequencing biobank data.
Bao J, Wen Z, Kim M, Zhao X, Lee BN, Jung SH, Davatzikos C, Saykin AJ, Thompson PM, Kim D, Zhao Y, Shen L, . Identifying highly heritable brain amyloid phenotypes through mining Alzheimer's imaging and sequencing biobank data. Biocomputing 2022, 27: 109-120. PMID: 34890141, PMCID: PMC8730532.Peer-Reviewed Original Research
2021
Bayesian network-driven clustering analysis with feature selection for high-dimensional multi-modal molecular data
Zhao Y, Chang C, Hannum M, Lee J, Shen R. Bayesian network-driven clustering analysis with feature selection for high-dimensional multi-modal molecular data. Scientific Reports 2021, 11: 5146. PMID: 33664338, PMCID: PMC7933297, DOI: 10.1038/s41598-021-84514-0.Peer-Reviewed Original ResearchConceptsMolecular dataJoint posterior distributionHigh-dimensional settingsVariational Bayes approachSingle-cell dataArt clustering methodsPosterior distributionMolecular profiling dataComputational efficiencyCanonical oncogenicTranscriptomic alterationsBiological discoveryModel inferenceBayes approachCell decompositionStemness phenotypeProfiling dataSingle cellsComputational methodsBulk tumorPathway alterationsNebulaClustering methodAnalysis settingsCell dataPolygenic mediation analysis of Alzheimer's disease implicated intermediate amyloid imaging phenotypes.
Yingxuan E, Yao X, Liu K, Risacher SL, Saykin AJ, Long Q, Zhao Y, Shen L. Polygenic mediation analysis of Alzheimer's disease implicated intermediate amyloid imaging phenotypes. AMIA Annual Symposium Proceedings 2021, 2020: 422-431. PMID: 33936415, PMCID: PMC8075527.Peer-Reviewed Original Research
2020
Bayesian sparse heritability analysis with high-dimensional neuroimaging phenotypes
Zhao Y, Li T, Zhu H. Bayesian sparse heritability analysis with high-dimensional neuroimaging phenotypes. Biostatistics 2020, 23: 467-484. PMID: 32948880, PMCID: PMC9308456, DOI: 10.1093/biostatistics/kxaa035.Peer-Reviewed Original ResearchConceptsHeritability analysisHuman complex traitsLarge-scale phenotypeQuantitative geneticsComplex traitsPhenotypic variationTrait selectionGenetic datasetsSingle phenotypeDownstream analysisGenetic contributionHeritability estimationPhenotypeTraitsCentral roleNeuroimaging phenotypesUnited Kingdom BiobankHierarchical selectionPhenotypic methodsGeneticsHeritabilitySelectionVariationBrain variationA pilot study of 13N-ammonia cardiac PET imaging to assess subacute cardiotoxicity following adjuvant intensity-modulated radiotherapy for locally advanced breast cancer
Nehmeh S, Fox J, Schwartz J, Ballangrud Å, Schöder H, Zhao Y, Strauss H, Yu A, Gupta D, Powell S, Ho A. A pilot study of 13N-ammonia cardiac PET imaging to assess subacute cardiotoxicity following adjuvant intensity-modulated radiotherapy for locally advanced breast cancer. Clinical Imaging 2020, 68: 283-290. PMID: 32919154, PMCID: PMC8207896, DOI: 10.1016/j.clinimag.2020.07.026.Peer-Reviewed Original ResearchConceptsRate-pressure productMyocardial flow reserveLABC patientsChest wallMyocardial segmentsAdjuvant intensity-modulated radiotherapyCardiac PET imagingPET imagingRadiotherapy treatment positionAdvanced breast cancerRegional lymph nodesBreast cancer patientsTreatment positionIntensity-modulated radiotherapySubacute cardiotoxicityHeart doseRT doseBlood pressureLymph nodesCoronary territoriesBC patientsCancer patientsCardiac functionBreast cancerFlow reserveDecreased sphingolipid synthesis in children with 17q21 asthma–risk genotypes
Ono JG, Kim BI, Zhao Y, Christos PJ, Tesfaigzi Y, Worgall TS, Worgall S. Decreased sphingolipid synthesis in children with 17q21 asthma–risk genotypes. Journal Of Clinical Investigation 2020, 130: 921-926. PMID: 31929190, PMCID: PMC6994114, DOI: 10.1172/jci130860.Peer-Reviewed Original ResearchConceptsSphingolipid de novo synthesisNonallergic asthmaPeripheral blood cellsDe novo synthesisAirway hyperreactivityAllergic asthmaHuman asthmaAsthma pathogenesisChildhood asthmaAsthma riskAsthmaORMDL3 expressionAsthma susceptibilityBlood cellsNovo synthesisSphingolipid synthesisFuture therapeuticsDe novo sphingolipid synthesisChildrenORMDL3 overexpressionRiskDihydroceramideCeramideGenotypesHyperreactivity
2018
Association networks in a matched case-control design – Co-occurrence patterns of preexisting chronic medical conditions in patients with major depression versus their matched controls
Kim MH, Banerjee S, Zhao Y, Wang F, Zhang Y, Zhu Y, DeFerio J, Evans L, Park S, Pathak J. Association networks in a matched case-control design – Co-occurrence patterns of preexisting chronic medical conditions in patients with major depression versus their matched controls. Journal Of Biomedical Informatics 2018, 87: 88-95. PMID: 30300713, PMCID: PMC6262847, DOI: 10.1016/j.jbi.2018.09.016.Peer-Reviewed Original ResearchConceptsChronic medical conditionsMajor depressive disorderNational sample cohortMedical conditionsCase-control designKorean National Health Insurance Service-National Sample CohortNational Health Insurance Service-National Sample CohortHealthcare service utilizationRegression modelingChronic conditionsMDD patientsDepressive disorderMajor depressionService utilizationDepression patientsMDD diagnosisPatientsComorbid featuresPlace of residenceSample cohortMDD casesSocioeconomic statusDemographic characteristicsRegional expression of genes mediating trans-synaptic alpha-synuclein transfer predicts regional atrophy in Parkinson disease
Freeze B, Acosta D, Pandya S, Zhao Y, Raj A. Regional expression of genes mediating trans-synaptic alpha-synuclein transfer predicts regional atrophy in Parkinson disease. NeuroImage Clinical 2018, 18: 456-466. PMID: 29868450, PMCID: PMC5984599, DOI: 10.1016/j.nicl.2018.01.009.Peer-Reviewed Original ResearchConceptsRegional brain atrophyProgression Markers InitiativeBrain atrophyRegional atrophyParkinson's Progression Markers InitiativeMultivariable regression analysisSignificant predictorsHigh-resolution magnetic resonanceParkinson's disease pathogenesisAutosomal recessive PDPD-related genesRegional expressionResolution magnetic resonanceBrain atlasParkinson's diseaseRegional dysfunctionDisease pathogenesisAtrophyGenetic predictorsTop candidate genesExpression patternsAllen Brain AtlasRegression analysisPredictorsMagnetic resonanceRegional vulnerability in Alzheimer's disease: The role of cell‐autonomous and transneuronal processes
Acosta D, Powell F, Zhao Y, Raj A. Regional vulnerability in Alzheimer's disease: The role of cell‐autonomous and transneuronal processes. Alzheimer's & Dementia 2018, 14: 797-810. PMID: 29306583, PMCID: PMC5994366, DOI: 10.1016/j.jalz.2017.11.014.Peer-Reviewed Original Research