We then took a candidate SNP approach and extracted all type 1 and type 2 diabetes-associated SNPs; the strongest type 1 diabetes-associated signal was in the HLA-DQB1 region (rs1063355, p = 6.28 × 10−6) (ESM Table 3); however, no type 2 diabetes-associated loci achieved significance (ESM Table 4). Here, HLA-DQB1 is linked to type 2 diabetes mellitus.