2024
Computationally inferred cell-type specific epigenome-wide DNA methylation analysis unveils distinct methylation patterns among immune cells for HIV infection in three cohorts
Zhang X, Hu Y, Vandenhoudt R, Yan C, Marconi V, Cohen M, Wang Z, Justice A, Aouizerat B, Xu K. Computationally inferred cell-type specific epigenome-wide DNA methylation analysis unveils distinct methylation patterns among immune cells for HIV infection in three cohorts. PLOS Pathogens 2024, 20: e1012063. PMID: 38466776, PMCID: PMC10957090, DOI: 10.1371/journal.ppat.1012063.Peer-Reviewed Original ResearchCD4+ T cellsEpigenome-wide association studiesPeripheral blood mononuclear cellsHIV infectionHIV pathogenesisT cellsCpG sitesNatural killer (NK) cellsCell typesAssociated with HIV infectionCD8+ T cellsMethylation patternsCpG methylationDNA methylationEpigenome-wide DNA methylation analysisBlood mononuclear cellsImmune cell typesDifferentially methylated CpG sitesUnique CpG sitesDifferential CpG methylationDNA methylation analysisSignificant CpG sitesArray-based methodsGene set enrichment analysisComputational deconvolution methods
2023
Trans-ancestry epigenome-wide association meta-analysis of DNA methylation with lifetime cannabis use
Fang F, Quach B, Lawrence K, van Dongen J, Marks J, Lundgren S, Lin M, Odintsova V, Costeira R, Xu Z, Zhou L, Mandal M, Xia Y, Vink J, Bierut L, Ollikainen M, Taylor J, Bell J, Kaprio J, Boomsma D, Xu K, Sandler D, Hancock D, Johnson E. Trans-ancestry epigenome-wide association meta-analysis of DNA methylation with lifetime cannabis use. Molecular Psychiatry 2023, 29: 124-133. PMID: 37935791, PMCID: PMC11078760, DOI: 10.1038/s41380-023-02310-w.Peer-Reviewed Original ResearchEpigenome-wide association studiesDNA methylationCpG sitesDNA methylation changesEpigenome-wide associationSignificant CpG sitesMethylation changesBlood-based DNA methylationAssociation studiesSignificant CpGsEWAS analysisFalse discovery rateMethylationHealth outcomesLifetime cannabisCigarette smokingDiscovery rateMethylation scoreADGRF1APOBRACTN1SitesADAM12CpGEnvironmental exposures