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Chunk #50 — Online Methods — Simulations: Figure 3

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Partitioning heritability by functional annotation using genome-wide association summary statistics.
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We began with the simulations of realistic enrichment in the baseline categories and the CNS cell-type group as in Figure 1. Then for each other cell-type group, we removed the CNS cell-type group and added the new cell-type group to the model, scaling the coefficient τc of the new cell-type group to keep the total heritability constant. We then increased the coefficients of the cell-type groups by a multiplicative constant so that the average top z-score over 5,000 simulations (10 cell-type groups × 500 replicates each) was close to the mean top z-score found in our analysis of 17 real traits. In a second set of simulations, we decreased the coefficients so that the top cell-type group was significant 50% of the time.