We analyzed the published 108 regions of schizophrenia risk in the latest Psychiatric Genomics Consortium (PGC) genome-wide association study for schizophrenia25. We calculated a X2-statistic to determine whether CpGs within the PGC regions differed in their developmental DNAm effects, specifically comparing differential methylation effect sizes from the pre- versus post-natal analysis by whether each probe (of the 456,513) fell within the PGC regions (by genomic coordinates, eg chr:start-end) or not.
