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Here, we combine data from six DNA methylomic studies of Alzheimer\u2019s disease (\n                    <jats:italic>N<\/jats:italic>\n                    \u2009=\u20091453 unique individuals) to identify differential methylation associated with Braak stage in different brain regions and across cortex. We identify 236 CpGs in the prefrontal cortex, 95 CpGs in the temporal gyrus and ten CpGs in the entorhinal cortex at Bonferroni significance, with none in the cerebellum. Our cross-cortex meta-analysis (\n                    <jats:italic>N<\/jats:italic>\n                    \u2009=\u20091408 donors) identifies 220 CpGs associated with neuropathology, annotated to 121 genes, of which 84 genes have not been previously reported at this significance threshold. We have replicated our findings using two further DNA methylomic datasets consisting of a further &gt;600 unique donors. The meta-analysis summary statistics are available in our online data resource (\n                    <jats:ext-link xmlns:xlink=\"http:\/\/www.w3.org\/1999\/xlink\" ext-link-type=\"uri\" xlink:href=\"http:\/\/www.epigenomicslab.com\/ad-meta-analysis\/\">www.epigenomicslab.com\/ad-meta-analysis\/<\/jats:ext-link>\n                    ).\n                  <\/jats:p>","DOI":"10.1038\/s41467-021-23243-4","type":"journal-article","created":{"date-parts":[[2021,6,10]],"date-time":"2021-06-10T06:04:33Z","timestamp":1623305073000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":164,"title":["A meta-analysis of epigenome-wide association studies in Alzheimer\u2019s disease highlights novel differentially methylated loci across cortex"],"prefix":"10.1038","volume":"12","author":[{"given":"Rebecca G.","family":"Smith","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-8964-0682","authenticated-orcid":false,"given":"Ehsan","family":"Pishva","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gemma","family":"Shireby","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6495-2711","authenticated-orcid":false,"given":"Adam R.","family":"Smith","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Janou A. 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