The ALIGATOR program was developed to identify groups of genes which may be potentially etiological for complex disorders (Holmans et al. 2009), based on whether they belong to particular GO categories. This analysis was extended here to include KEGG pathways. In our EA sample, application of the ALIGATOR algorithm found a highly significant excess of enriched GO categories/KEGG pathways, based on SNPs within 20kb of genes (Table 4). In the AA sample, the results were less striking, although of borderline statistical significance. This may be due to the AA sample being smaller, and thus less powerful.
