Article
PRS-on-Spark (PRSoS): a novel, efficient and flexible approach for generating polygenic risk scores.
BMC bioinformatics - 8 Aug 2018
Chen Lawrence M, Yao Nelson, Garg Elika, Zhu Yuecai, Nguyen Thao T T, Pokhvisneva Irina, Hari Dass Shantala A, Unternaehrer Eva, Gaudreau Hélène, Forest Marie, McEwen Lisa M, MacIsaac Julia L, Kobor Michael S, Greenwood Celia M T, Silveira Patricia P, Meaney Michael J, O'Donnell Kieran J
Abstract excerpt
BACKGROUND: Polygenic risk scores (PRS) describe the genomic contribution to complex phenotypes and consistently account for a larger proportion of variance in outcome than single nucleotide polymorphisms (SNPs) alone. However, there is little consensus on the optimal data input for generating PRS, and existing approaches largely preclude the use of imputed posterior probabilities and strand-ambiguous SNPs i.e.,...
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