Epigenome-wide CpG Methylation Profiling

Epigenome-wide CpG methylation was profiled using either the Illumina HumanMethylation450 BeadChip (450K) (San Diego, CA, USA) in the MESA (monocyte), YSCCS (blood), and VACS (blood) (57.2% of the sample) cohorts or Illumina HumanMethylation EPIC BeadChip (EPIC) (San Diego, CA, USA) in 42.8% of the VACS samples and the WIHS (peripheral blood mononuclear cells) samples. All samples in the three study cohorts (YSCCS, VACS, and WIHS) were processed at the Yale Center for Genomic Analysis (Zhang et al., 2017 (link)). We applied the method described by Houseman et al. (Houseman et al., 2012 (link), Jaffe and Irizarry, 2014 (link)) to estimate the proportions of CD4+ T cells, CD8+ T cells, NK T cells, B cells, monocytes, and granulocytes in each cohort. Quality control of methylation data for each cohort is presented in Supplementary Information.

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Liang X., Sinha R., Justice A.C., Cohen M.H., Aouizerat B.E, & Xu K. (2022). A new monocyte epigenetic clock reveals nonlinear effects of alcohol consumption on biological aging in three independent cohorts (N = 2242). Alcoholism, Clinical and Experimental Research, 46(5), 736-748.

Publication 2022

HumanMethylation450 BeadChip (450K)

B cells Blood Cd4 t cells Cd8 t cells Epigenome Genomic Granulocytes Methylation Monocytes Nk t cells Peripheral blood mononuclear cells

Corresponding Organization : Yale University

Other organizations : University of Tennessee Health Science Center, John H. Stroger, Jr. Hospital of Cook County, New York University

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Variable analysis

independent variables

Epigenome-wide CpG methylation profiling using Illumina HumanMethylation450 BeadChip (450K) or Illumina HumanMethylation EPIC BeadChip (EPIC)

dependent variables

Proportions of CD4+ T cells, CD8+ T cells, NK T cells, B cells, monocytes, and granulocytes in each cohort

control variables

All samples in the three study cohorts (YSCCS, VACS, and WIHS) were processed at the Yale Center for Genomic Analysis

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