Chunk #22 — Materials and Method — Analytic Plan — Polygenic score creation

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Incorporating Functional Genomic Information to Enhance Polygenic Signal and Identify Variants Involved in Gene-by-Environment Interaction for Young Adult Alcohol Problems.

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(LD) with another SNP overlapping a DHS. Of the 212,718 genome-wide score SNPs, 78,948 (37%) were located in a DHS site, and 3,946 (37%) and 789 (36%) of the DHS score SNPs fell under the GWAS p value thresholds of p < .05 and p < .01, respectively. Hereafter we will use the terms “GW-scores” to refer to polygenic scores created from the genome-wide set of SNPs and “DHS-scores” to refer to polygenic scores from SNPs located in DHS sites only.