Figure 3

Probability plot of GSMA schizophrenia statistics. A. Probability plot of the 120 p-values corresponding to the 120 GSMA statistics T₁ , ..., T₁₂₀ from the 20 schizophrenia genome scans reported in Lewis [7], versus the (expected) uniform distribution. Also depicted are the Bonferroni (solid line) and Holm (dotted line) boundaries at overall alpha level 0.05. B. Inset of Figure 3A, in which we display solely the Bonferroni and Holm boundaries. We have rescaled the y-axis so as to emphasize the differences in the boundaries, and have relabeled the x-axis to correspond to the fact that we here have n = 120 ordered p-values. C. Inset of Figure 3A, illustrating the 12 smallest ordered p-values (circles), along with a Holm [13] boundary (solid line) at overall alpha level 0.05. [We are using the integer ordering of the x-axis as in Figure 3B.] Only the first p-value, corresponding to bin 2.5, falls outside this boundary. The bins depicted here, from left to right, are: 2.5, 3.2, 11.5, 5.5, 20.2, 8.2, 6.1, 2.6, 22.1, 1.6, 1.7, and 5.3.