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Chunk #7 — Online Methods — Genomic Risk Loci Definition

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Genome-wide association meta-analysis in 269,867 individuals identifies new genetic and functional links to intelligence.
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Independently associated loci from the meta-analysis were defined using FUMA24 (see URLs), an online platform for functional mapping of genetic variants. We first identified independent significant SNPs which had a Bonferroni-corrected genome-wide significant two-tailed P-value (P<5×10−8) and represented signals that were independent from each other at r2<0.6. These SNPs were further represented by lead SNPs, which are a subset of the independent significant SNPs that are in approximate linkage equilibrium with each other at r2<0.1. We then defined associated genomic loci by merging any physically overlapping lead SNPs (linkage disequilibrium [LD] blocks <250kb apart). Borders of the associated genomic loci were defined by identifying all SNPs in LD (r2≧0.6) with one of the independent significant SNPs in the locus, and the region containing all of these candidate SNPs was considered to be a single independent genomic locus. All LD information was calculated from UK Biobank genotype data.