EVAapplication/xmlftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB94535/AncestryMarkers_255samples_LDPruned.vcf.gzftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB94535/epic_germline_b2_99_AC_AF.vcf.gz.csiftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB94535/epic_germline_b2_99_AC_AF.vcf.gzftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB94535/AncestryMarkers_255samples_LDPruned.vcf.gz.csiftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB94535/epic_germline_b2_99_AC_AF.vcf.csiftp://ftp.ebi.ac.uk/pub/databases/eva/PRJEB94535/AncestryMarkers_255samples_LDPruned.vcf.csiprimaryOK200Whole Genome SequencingGenomicsThe University of Sydney-Homo Sapienshttps://www.ebi.ac.uk/eva/?eva-study=PRJEB94535EVAfalseDevelopment of a southern African-relevant methylome-wide EPIC filtering resource for SNP-confounded probe removalA southern African-relevant variant filtering resource was generated using high-coverage (mean 43X) whole genome sequencing data from 99 genetically confirmed southern African individuals. Germline single nucleotide variants (SNVs) and small insertions/deletions (<50 bp) were called against the GRCh38 reference genome, and variants with a minor allele frequency (MAF) >0.01 were retained to create a population-specific filter optimised for downstream genomic analyses in southern African cohorts. Ancestry markers used to determine the ancestry of these 99 individuals and an additional 192 individuals are included.2025-08-12PRJEB945359606