{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"submitter":["Zhuang BC"],"funding":["NIA NIH HHS","NIGMS NIH HHS"],"pubmed_abstract":["The recently launched Illumina Infinium MethylationEPIC v2.0 (EPICv2), successor of MethylationEPIC v1.0 (EPICv1), retains a majority of probes in EPICv1, while expanding coverage of regulatory elements. The concordance between the two EPIC versions in DNA methylation-based tools has not yet been investigated. To address this, DNA methylation was profiled on both versions using matched blood samples across four cohorts spanning early to late adulthood. High concordance between versions at the array level but variable agreement at the individual probe level was noted. A significant contribution of EPIC version to DNA methylation variation was observed, though it was to a smaller extent compared to sample relatedness and cell type composition. Modest but significant differences in DNA methylation-based estimates between versions were observed, irrespective of the data preprocessing method used. Adjustments for EPIC version or calculation of estimates separately for each version largely mitigated these version-specific discordances. This work emphasizes the importance of accounting for EPIC version differences in research scenarios, especially in meta-analyses and longitudinal studies that require data harmonization across versions."],"journal":["bioRxiv : the preprint server for biology"],"pagination":["2024.07.02.600461"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC11245009"],"repository":["biostudies-literature"],"pubmed_title":["Accounting for differences between Infinium MethylationEPIC v2 and v1 in DNA methylation-based tools."],"pmcid":["PMC11245009"],"funding_grant_id":["T32 GM144273","R01 AG061378","R01 AG052537","R01 AG061006"],"pubmed_authors":["Yusupov N","Whitehead J","Dever K","Binder EB","Korthauer K","McDade TW","Zhuang BC","Belsky DW","Czamara D","Tran TK","Zimmer Z","Kobor MS","Kuzawa CW","Lee NR","Halberstam AA","Jude MS","MacIsaac JL","Konwar C","Ryan CP","Engelbrecht HR","Korinek K","Huffman KM"],"additional_accession":[]},"is_claimable":false,"name":"Accounting for differences between Infinium MethylationEPIC v2 and v1 in DNA methylation-based tools.","description":"The recently launched Illumina Infinium MethylationEPIC v2.0 (EPICv2), successor of MethylationEPIC v1.0 (EPICv1), retains a majority of probes in EPICv1, while expanding coverage of regulatory elements. The concordance between the two EPIC versions in DNA methylation-based tools has not yet been investigated. To address this, DNA methylation was profiled on both versions using matched blood samples across four cohorts spanning early to late adulthood. High concordance between versions at the array level but variable agreement at the individual probe level was noted. A significant contribution of EPIC version to DNA methylation variation was observed, though it was to a smaller extent compared to sample relatedness and cell type composition. Modest but significant differences in DNA methylation-based estimates between versions were observed, irrespective of the data preprocessing method used. Adjustments for EPIC version or calculation of estimates separately for each version largely mitigated these version-specific discordances. This work emphasizes the importance of accounting for EPIC version differences in research scenarios, especially in meta-analyses and longitudinal studies that require data harmonization across versions.","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Jun","modification":"2026-06-11T03:14:06.977Z","creation":"2025-04-06T18:30:04.948Z"},"accession":"S-EPMC11245009","cross_references":{"pubmed":["39005299"],"doi":["10.1101/2024.07.02.600461"]}}