For each of the schizophrenia and bipolar datasets, in tables S1 and S2, we present information about the identity of genes surpassing any of the thresholds corresponding to (best or product) p<0.001. For this purpose, we took genes which met any of the thresholds corresponding to p≤0.01 in tables 2 and 3 and undertook 100,000 permutations. This is because specific genes assigned p>0.01 should be fairly accurately specified by 1000 permutations whereas those where the gene-wide p<0.01 may not be. We chose to present the identity of genes surpassing the thresholds p<0.001 as at this threshold, the ratio of the number of observed genes to that expected under the null is substantially greater than 1, suggesting that any one gene is more likely to represent a true than a false observation. It is nevertheless important to note that the evidence for any one gene is not compelling and the specific findings requires confirmation in additional samples. Also, the close proximity of a number of the genes suggests that there are instances where more than one gene derives from the same
