2023
Know-how of holding a Bioinformatics competition: Structure, model, overview, and perspectives
Horácio E, de Carvalho L, Pereira G, Abrahim M, Coelho M, De Jesus D, García G, de Melo-Minardi R, Nagamatsu S. Know-how of holding a Bioinformatics competition: Structure, model, overview, and perspectives. PLOS Computational Biology 2023, 19: e1011679. PMID: 38127831, PMCID: PMC10735175, DOI: 10.1371/journal.pcbi.1011679.Peer-Reviewed Original ResearchProfiling neuronal methylome and hydroxymethylome of opioid use disorder in the human orbitofrontal cortex
Rompala G, Nagamatsu S, Martínez-Magaña J, Nuñez-Ríos D, Wang J, Girgenti M, Krystal J, Gelernter J, Hurd Y, Montalvo-Ortiz J. Profiling neuronal methylome and hydroxymethylome of opioid use disorder in the human orbitofrontal cortex. Nature Communications 2023, 14: 4544. PMID: 37507366, PMCID: PMC10382503, DOI: 10.1038/s41467-023-40285-y.Peer-Reviewed Original ResearchConceptsOpioid use disorderMulti-omics findingsGene expression patternsCo-methylation analysisGene expression profilesMulti-omics profilingGene networksDNA methylationNeuronal methylomesDNA hydroxymethylationMethylomic analysisExpression patternsExpression profilesEpigenetic disturbancesUse disordersPsychiatric traitsOrbitofrontal cortexOpioid-related drugsPostmortem orbitofrontal cortexEnvironmental factorsDrug interaction analysisOUD treatmentHuman orbitofrontal cortexOpioid signalingInteraction analysis
2022
Dissecting the epigenomic differences between smoking and nicotine dependence in a veteran cohort
Nagamatsu S, Pietrzak R, Xu K, Krystal J, Gelernter J, Montalvo‐Ortiz J. Dissecting the epigenomic differences between smoking and nicotine dependence in a veteran cohort. Addiction Biology 2022, 28: e13259. PMID: 36577721, DOI: 10.1111/adb.13259.Peer-Reviewed Original ResearchConceptsSmoking statusNicotine dependenceVeteran cohortNon-current smokersSerious public health issueNovel treatment strategiesPublic health issueUS military veteransEpigenome-wide association studiesCurrent smokersTreatment strategiesFagerström TestNicotine addictionSmokingHealth issuesRole of epigeneticsMilitary veteransMethylationEPIC BeadChip arraySmokersContinuous variablesF2RL3 geneCohortBiomarkersBeadChip arrayPrevious findingsPsychosocial Factors Associated With Accelerated GrimAge in Male U.S. Military Veterans
Tamman AJF, Nagamatsu S, Krystal JH, Gelernter J, Montalvo-Ortiz JL, Pietrzak RH. Psychosocial Factors Associated With Accelerated GrimAge in Male U.S. Military Veterans. American Journal Of Geriatric Psychiatry 2022, 31: 97-109. PMID: 36210262, DOI: 10.1016/j.jagp.2022.09.002.Peer-Reviewed Original ResearchConceptsRisk factorsPremature mortalityU.S. veteransPsychosocial variablesNovel epigenetic clockLifetime substance use disorderRisk stratification modelMale U.S. veteransCross-sectional studyU.S. veteran populationWeekly physical exerciseSubstance use disordersMale U.S. military veteransBiological agingU.S. military veteransHealth morbidityModifiable correlatesMortality riskSleep qualityHigh riskGreater oddsUse disordersPhysical exercisePsychosocial factorsVeteran populationAssociation of Symptoms of Posttraumatic Stress Disorder and GrimAge, an Epigenetic Marker of Mortality Risk, in US Military Veterans.
Na PJ, Montalvo-Ortiz JL, Nagamatsu ST, Southwick SM, Krystal JH, Gelernter J, Pietrzak RH. Association of Symptoms of Posttraumatic Stress Disorder and GrimAge, an Epigenetic Marker of Mortality Risk, in US Military Veterans. The Journal Of Clinical Psychiatry 2022, 83 PMID: 35802930, PMCID: PMC10859885, DOI: 10.4088/jcp.21br14309.Peer-Reviewed Original Research
2021
DNA methylation changes in African American women with a history of preterm birth from the InterGEN study
Barcelona V, Montalvo-Ortiz JL, Wright ML, Nagamatsu ST, Dreisbach C, Crusto CA, Sun YV, Taylor JY. DNA methylation changes in African American women with a history of preterm birth from the InterGEN study. BMC Genomic Data 2021, 22: 30. PMID: 34482817, PMCID: PMC8418749, DOI: 10.1186/s12863-021-00988-x.Peer-Reviewed Original ResearchConceptsPreterm birthHealth disordersFull-term birthCentral nervous systemEpigenome-wide association studiesAfrican American womenInterGEN StudyBackgroundPreterm birthMaternal moodWomen 3Cardiovascular diseaseIndependent cohortPhysiologic mechanismsNervous systemAfrican American mothersSignificant CpG sitesEWAS approachWomenBirthSensory processingDNA methylationLong-term epigenetic effectsAmerican womenCommon outcomeFurther studies
2019
Expected Genotype Quality and Diploidized Marker Data from Genotyping‐by‐Sequencing of Urochloa spp. Tetraploids
Matias FI, Meireles K, Nagamatsu ST, Barrios S, do Valle C, Carazzolle MF, Fritsche‐Neto R, Endelman JB. Expected Genotype Quality and Diploidized Marker Data from Genotyping‐by‐Sequencing of Urochloa spp. Tetraploids. The Plant Genome 2019, 12: 1-9. PMID: 33016594, DOI: 10.3835/plantgenome2019.01.0002.Peer-Reviewed Original Research
2018
Global analysis of erythroid cells redox status reveals the involvement of Prdx1 and Prdx2 in the severity of beta thalassemia
Romanello KS, Teixeira KKL, Silva JPMO, Nagamatsu ST, Bezerra MAC, Domingos IF, Martins DAP, Araujo AS, Lanaro C, Breyer CA, Ferreira RA, Franco-Penteado C, Costa FF, Malavazi I, Netto LES, de Oliveira MA, Cunha AF. Global analysis of erythroid cells redox status reveals the involvement of Prdx1 and Prdx2 in the severity of beta thalassemia. PLOS ONE 2018, 13: e0208316. PMID: 30521599, PMCID: PMC6283586, DOI: 10.1371/journal.pone.0208316.Peer-Reviewed Original ResearchConceptsMolecular chaperone activityRed blood cellsCell redox statusLevels of transcriptsAntioxidant enzymesSevere oxidative damageBTI patientsBeta-thalassemia intermediaChaperone activityGlobal analysisTranscription factorsProtein contentAbundant proteinsOverall abundanceExpression profilesHigh hydroperoxide concentrationsLevels of ROSPrdx-1Red cell disordersBeta thalassemia