Logue, M., Smith, A. K., Wolf, E., Maniates, H., Stone, A., Schichman, S., McGlinchey, R., Milberg, W., & Miller, M. W. (2017). The correlation of methylation levels measured using Illumina 450K and EPIC BeadChips in blood samples. Epigenomics, 9, 1363-1371.
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1750-192xLogue, Mark WSmith, Alicia KWolf, Erika JManiates, HannahStone, AnnjanetteSchichman, Steven AMcGlinchey, Regina EMilberg, WilliamMiller, Mark WR03 AG051877/AG/NIA NIH HHS/United StatesI01 BX003477/BX/BLRD VA/United StatesI01 CX001276/CX/CSRD VA/United StatesR01 MH106595/MH/NIMH NIH HHS/United StatesR01 MH108826/MH/NIMH NIH HHS/United StatesR21 MH102834/MH/NIMH NIH HHS/United StatesComparative StudyJournal ArticleResearch Support, N.I.H., ExtramuralResearch Support, U.S. Gov't, Non-P.H.S.Epigenomics. 2017 Nov;9(11):1363-1371. doi: 10.2217/epi-2017-0078. Epub 2017 Aug 15.
Abstract
AIM: We examined concordance of methylation levels across the Illumina Infinium HumanMethylation450 BeadChip and the Infinium MethylationEPIC BeadChip. METHODS: We computed the correlation for 145 whole blood DNA samples at each of the 422,524 CpG sites measured by both chips. RESULTS: The correlation at some sites was high (up to r = 0.95), but many sites had low correlation (55% had r 0.20). The low correspondence between 450K and EPIC measured methylation values at many loci was largely due to the low variability in methylation values for the majority of the CpG sites in blood. CONCLUSION: Filtering out probes based on the observed correlation or low variability may increase reproducibility of BeadChip-based epidemiological studies.
Last updated on 03/06/2023