Supplementary Figure 3: Quantile–quantile plots of P values from enrichment tests of random gene sets. | Nature Genetics

Supplementary Figure 3: Quantile–quantile plots of P values from enrichment tests of random gene sets.

From: The contribution of rare variants to risk of schizophrenia in individuals with and without intellectual disability

Supplementary Figure 3

Top left, case–control SNVs from whole-exome sequence data. Top right, de novo mutations from 1,077 trios. Bottom left, case–control CNVs. Bottom right, meta-analysis P values from Fisher’s method (dark blue). Genes were randomly sampled from the genome to create gene sets with the same size distribution as the 1,766 tested gene sets. Each dot represents a different gene set. The 95% CI assuming uniformly distributed P values is displayed as the gray shaded area. Tailored enrichment tests were applied to each variant type (Online Methods). The genomic inflation factor (λ) is provided for each distribution. No inflation of test statistics was observed in the meta-analysis P values. Damaging missense, missense variants with CADD Phred > 15.

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