2024
Neuronal-specific methylome and hydroxymethylome analysis reveal significant loci associated with alcohol use disorder
Andrade-Brito D, Núñez-Ríos D, Martínez-Magaña J, Nagamatsu S, Rompala G, Zillich L, Witt S, Clark S, Lattig M, Montalvo-Ortiz J, Alvarez V, Benedek D, Che A, Cruz D, Davis D, Girgenti M, Hoffman E, Holtzheimer P, Huber B, Kaye A, Keane T, Krystal J, Labadorf A, Logue M, Marx B, Mash D, McKee A, Miller M, Montalvo-Ortiz J, Noller C, Schnurr P, Scott W, Stein T, Ursano R, Williamson D, Wolf E, Young K. Neuronal-specific methylome and hydroxymethylome analysis reveal significant loci associated with alcohol use disorder. Frontiers In Genetics 2024, 15: 1345410. PMID: 38633406, PMCID: PMC11021708, DOI: 10.3389/fgene.2024.1345410.Peer-Reviewed Original ResearchAssociated with alcohol use disorderAlcohol use disorderOrbitofrontal cortexEpigenome-wide association studiesUse disorderStudy of alcohol use disorderHuman orbitofrontal cortexAlcohol-related traitsHuman brainPostmortem brain samplesHuman postmortem brain samplesEnrichment analysisDifferential CpG sitesPostmortem brain tissueGenome-wide levelOxidative bisulfite sequencingAssessed 5Functional enrichment analysisBrain tissueFalse discovery rateBisulfite sequencingAssociation studiesDifferential methylationIdentified genesDNA methylation
2023
CpH methylome analysis in human cortical neurons identifies novel gene pathways and drug targets for opioid use disorder
Nagamatsu S, Rompala G, Hurd Y, Núñez-Rios D, Montalvo-Ortiz J, Group T, Alvarez V, Benedek D, Che A, Cruz D, Davis D, Girgenti M, Hoffman E, Holtzheimer P, Huber B, Kaye A, Krystal J, Labadorf A, Keane T, Logue M, McKee A, Marx B, Mash D, Miller M, Noller C, JM-O, Scott W, Schnurr P, Stein T, Ursano R, Williamson D, Wolf E, Young K. CpH methylome analysis in human cortical neurons identifies novel gene pathways and drug targets for opioid use disorder. Frontiers In Psychiatry 2023, 13: 1078894. PMID: 36745154, PMCID: PMC9892724, DOI: 10.3389/fpsyt.2022.1078894.Peer-Reviewed Original ResearchOpioid use disorderOrbital frontal cortexDNA methylationKEGG enrichment analysisUse disordersMCPH lociTreatment of OUDGene OntologyEnrichment analysisOpioid-related drugsCpG sitesDrug targetsOxidative bisulfite sequencingImportant biological pathwaysDrug interaction analysisDrug-gene interaction databaseNervous system developmentSmoking statusBrain BankCortical neuronsFrontal cortexNeuronal nucleiHuman studiesGene regulationMethylome analysis
2019
Epigenome‐Wide DNA Methylation Association Analysis Identified Novel Loci in Peripheral Cells for Alcohol Consumption Among European American Male Veterans
Xu K, Montalvo‐Ortiz J, Zhang X, Southwick SM, Krystal JH, Pietrzak RH, Gelernter J. Epigenome‐Wide DNA Methylation Association Analysis Identified Novel Loci in Peripheral Cells for Alcohol Consumption Among European American Male Veterans. Alcohol Clinical And Experimental Research 2019, 43: 2111-2121. PMID: 31386212, PMCID: PMC9377208, DOI: 10.1111/acer.14168.Peer-Reviewed Original ResearchConceptsEpigenome-wide association studiesDNA methylationCpG sitesSignificant CpG sitesHigh-density methylation arraysNovel DNA methylation sitesNew CpG sitesDNA methylation sitesEpigenome-wide DNA methylationAmino acid transportIndividual CpG sitesGene lengthPeripheral cellsNovel lociDNA sitesKEGG databaseMethylation sitesEnrichment analysisMethylation arraysAssociation studiesAssociation analysisGenesMethylationAcid transportFalse discovery rate
2017
Genome-Wide DNA Methylation Changes Associated with Intermittent Explosive Disorder: A Gene-Based Functional Enrichment Analysis
Montalvo-Ortiz JL, Zhang H, Chen C, Liu C, Coccaro EF. Genome-Wide DNA Methylation Changes Associated with Intermittent Explosive Disorder: A Gene-Based Functional Enrichment Analysis. The International Journal Of Neuropsychopharmacology 2017, 21: 12-20. PMID: 29106553, PMCID: PMC5789263, DOI: 10.1093/ijnp/pyx087.Peer-Reviewed Original ResearchConceptsGenome-wide DNA methylation changesFunctional enrichment analysisDNA methylation changesEnrichment analysisCpG sitesMethylation changesGenome-wide significant thresholdIllumina Infinium HumanMethylation450 BeadChipBlood DNA methylomeNovel biological processesInfinium HumanMethylation450 BeadChipDNA methylomeEpigenetic mechanismsPathway analysisBiological processesGenetic studiesNeuronal differentiationHumanMethylation450 BeadChipGenesBehavioral genetic studiesR packageImportant mechanismGenetic influencesEndocrine systemMethylome