The LDSR framework allowed us to compare the genetic architecture of CLOZUK and INDEPENDENT PGC, by calculating the correlation of their summary statistics64. A genetic correlation coefficient of 0.954±0.030 was obtained, with a P value of 6.63×10−227. We also examined the independent SNPs that reached a genome-wide significant level in the INDEPENDENT PGC dataset, of which there were 76 after excluding the extended major histocompatibility complex (xMHC) region. In the CLOZUK sample, 76% (n = 57) of these genome-wide significant SNPs were nominally significant (P < 0.05). Using binomial sign tests based on clumped subsets of SNPs65, we found that all but 1 (98.6%) of these 76 genome-wide significant SNPs were associated with the same direction of effect in the CLOZUK sample, a result highly unlikely to reflect chance (P = 2.04 × 10−21; Supplementary Table 1). Moreover, of the 1,160 SNPs with an association P value less than 1 × 10−4 in the INDEPENDENT PGC sample, 82% showed enrichment in the CLOZUK cases (P = 3.44 × 10−113), confirming that very large numbers of true associations will be discovered
