The most significant SNPs in the 16q12.2/FTO fine-mapping region was rs56137030 (p-value 8.3×10−6), which showed no evidence for heterogeneity (p = 0.13; Table 3). Each A allele of this variant (allele frequency = 0.12) increased BMI by 1.35% (95% confidence interval (0.76%–1.95%). Table 3 also displays results for the three next most significant SNPs showing similar significant associations (p-values 1.4×10−5 to 1.1×10−5) and Table S1 shows results separately for each study. All three SNPs were correlated with rs56137030 (r2≥0.73 in AA and r2≥0.91 in EA; Table S2). rs56137030 and the three next most significant SNPs are located in intron 1 of the FTO gene, approximately in the middle of the region (Figure 1). The nine GWAS index SNPs previous highlighted in EA studies are also located in the same intron 1 FTO region and results for these nine GWAS index SNPs are provided in Table 3 showing p-values<0.05 for five out of the nine index SNPs (0.03 to 3.0×10−4).
