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Chunk #53 — STAR★METHODS — QUANTIFICATION AND STATISTICAL ANALYSIS — Polygenic analysis — Out of sample prediction

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Trans-ancestry genome-wide study of depression identifies 697 associations implicating cell types and pharmacotherapies.
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Results are reported per cohort and for the weighted mean across cohorts (weighted by effective sample size, Neff). The results reported in the main text come from the joint analysis of 48 cohorts combined based on their within-cohort standardised PGS; the estimated variance explained in liability from the joint analysis was the same as the weighted average of the estimates from individual cohorts. In addition to the evaluation statistics generated for individual cohorts, the joint analysis also allowed evaluation of OR per PGS centiles and their 95% confidence intervals.