Twelve SNPs met a genome-wide statistical significance threshold of less than 1.0×10−7 (Table 1). The SNPs were within the known celiac disease loci on chromosomes 3p21.31, 4q27, 6p15 and 6p25.3, all of which showed significant association in the previous GWAS and follow-up studies by Dubois et al. [7]. These loci were subsequently included in a high-resolution association analysis by Trynka et al. [10] to refine their positions. The locus on chromosome 3p21.31 is intergenic between CCR3 and CCR2. Chromosome 4q27 includes KIAA1109, ADAD1, IL2 and IL21 in a single block of strong linkage disequilibrium. The locus on 6p15 is within intron 2 of the BACH2 gene, and 6q25.3 includes the 5′ UTR plus 4 kb of the TAGAP gene. Identification of these sites is consistent with and confirms previous findings as to their locations and odds ratios.
