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Chunk #15 — Methodology — Polygenic scores

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Genetic association study of childhood aggression across raters, instruments, and age.
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All data were meta-analyzed twice more, once omitting all data from the Netherlands Twin Register (NTR) and once omitting the Australian data from the Queensland Institute for Medical Research (QIMR) and the Mater-University of Queensland Study of Pregnancy (MUSP). As the NTR target sample we considered mother-reported AGG at age 7 (N = 4491), which represents the largest NTR univariate stratum. In the QIRM participants, we tested whether our childhood AGG PGS predicted adult retrospective assessment of their own CD behavior during adolescence (N = 10 706). We allowed for cohort-specific best practice in the PGS analysis. In the NTR, we created 16 sets of PGSs in PLINK1.9 [33], with P value thresholds between 1 and 1.0E–05 (see Supplementary Table 13). The remaining SNPs were clumped in PLINK. We applied an r2 threshold of 0.5 and minimum clumping distance of 250 000 base pair positions [33]. Age, age [2], sex, first five ancestry-based principal components, a SNP-array variable, and interaction terms between sex and age, and sex and age [2] were defined as fixed effects. To account for relatedness, prediction