Table 1.
SNPs with genome-wide significant association in fine-mapping analysis
| Minor allele frequency | PWC alleles | ||||||||||
| SNP | OR | Pemmax | Base pair location | Affected | Unaffected | Minor (risk) | Major | canFam2 | hg19 | LD with topsnp (r2) | Annotation |
| cfa25:45435040 | 1.8 | 1.5 × 10−7 | 25:45,435,040 | 0.42 | 0.02 | A | G | A | A | 0.74 | Intron of SP110 |
| cfa25:45437568 | 2.0 | 3.1 × 10−8 | 25:45,437,568 | 0.38 | 0.02 | T | C | T | T | 0.82 | Intron of SP110 |
| BICF2G630104165 | 1.9 | 2.7 × 10−8 | 25:45,443,320 | 0.40 | 0.03 | G | A | A | A | 1 | Synonymous coding SP110 |
| cfa25:45445891 | 1.9 | 6.0 × 10−8 | 25:45,445,891 | 0.42 | 0.03 | G | A | G | — | 1 | Intron of SP110 |
| cfa25:45447628 | 1.9 | 6.0 × 10−8 | 25:45,447,628 | 0.42 | 0.03 | T | A | A | T | 1 | Nonsynonymous coding SP110 |
Five SNPs displayed genome-wide significant associations in analysis performed by EMMAX incorporating two principal components to adjust for population structure. The SNPs were in strong LD and located in a 12.5-kb region within the gene SP110. The five SNPs in the table were used to construct the haplotypes displayed in Table 2. OR, odds ratio.