2024
Reliable detection of stochastic epigenetic mutations and associations with cardiovascular aging
Markov Y, Levine M, Higgins-Chen A. Reliable detection of stochastic epigenetic mutations and associations with cardiovascular aging. GeroScience 2024, 1-21. PMID: 38736015, DOI: 10.1007/s11357-024-01191-3.Peer-Reviewed Original ResearchStochastic epigenetic mutationsAge-related DNA methylation changesEpigenetic mutationsBlood cell type compositionDNA methylation changesCell type compositionUnmethylated probesPresence of SNPsGenomic locationsMethylation patternsMethylation changesDinucleotide sitesMethylation probesTechnical noiseBlood cell compositionTechnical replicate dataR packageAging phenotypesFramingham Heart StudyMutationsCell compositionAging biomarkersSNPsType compositionProbe
2021
Genetic associations for two biological age measures point to distinct aging phenotypes
Kuo C, Pilling LC, Liu Z, Atkins JL, Levine ME. Genetic associations for two biological age measures point to distinct aging phenotypes. Aging Cell 2021, 20: e13376. PMID: 34038024, PMCID: PMC8208797, DOI: 10.1111/acel.13376.Peer-Reviewed Original ResearchConceptsGenome-wide association scansAssociation scanEuropean descent participantsHomeostasis pathwaysPathway enrichmentAging phenotypesGenesGenetic associationCell functionStrong signalBiological age measuresPathwayUK BiobankGenetic predispositionClinical biochemistry markersImmune systemEnrichmentSNPsPhenotypeAPOE geneLipidsPredispositionDomainMarkers
2017
A Weighted SNP Correlation Network Method for Estimating Polygenic Risk Scores
Levine ME, Langfelder P, Horvath S. A Weighted SNP Correlation Network Method for Estimating Polygenic Risk Scores. Methods In Molecular Biology 2017, 1613: 277-290. PMID: 28849564, PMCID: PMC5998804, DOI: 10.1007/978-1-4939-7027-8_10.Peer-Reviewed Original ResearchConceptsComplex traitsHuman heightCorrelation network analysisPolygenic score methodsPolygenic scoresSNP networkGWAS dataHub genesBiological insightsGenetic markersAllele countsGenetic pleiotropyTraitsGene scoreBiologyNetwork analysisPolygenic risk scoresNetwork-based methodPleiotropyGenesEnvironmental effectsSNPsPathwayLarge proportionDeeper understanding
2016
Genetic variants near MLST8 and DHX57 affect the epigenetic age of the cerebellum
Lu AT, Hannon E, Levine ME, Hao K, Crimmins EM, Lunnon K, Kozlenkov A, Mill J, Dracheva S, Horvath S. Genetic variants near MLST8 and DHX57 affect the epigenetic age of the cerebellum. Nature Communications 2016, 7: 10561. PMID: 26830004, PMCID: PMC4740877, DOI: 10.1038/ncomms10561.Peer-Reviewed Original ResearchConceptsWide association studyCis-acting effectsDNA methylation levelsAge-related diseasesGWAS analysisSignificant SNPsGene setsMLST8Association studiesEpigenetic clocksMethylation levelsEpigenetic biomarkersGenetic variantsExpression levelsSNPsUnderstanding agingEpigenetic ageTissue ageCerebellar samplesSignificant overlapGWASLociAlzheimer's diseaseClockVariants