Results of GWAS for complex traits suggest that the disease or trait associations are enriched in genomic regions with several risk variants in a single locus and as such, a set based association test assessing the effect of an aggregated set of SNPs has been suggested to be more powerful than single SNP analyses (Bakshi et al., 2016). Hence, to address our second aim we chose a set based analysis. We first extracted SNP sets by using the genomic locations reported for the validated 108 schizophrenia associated loci (Ripke et al., 2014). Excluding three regions in the X-chromosome we had a total of 105 sets.
