Table 1.
The p-values of the most significant SNPs in the GWAS.
| SNP Position1 | Covariates2 | MAF3 | p-value4 | EMP25 | PC1 and mixed model p-value6 |
|---|---|---|---|---|---|
| chr16.41996587 | Sex and Raced | 0.30 | 3.0 × 10−6 (5.52) | 0.04 (1.43) | 8.0 × 10−6 (5.10) |
| chr16.41996587 | Sex | 0.30 | 1.3 × 10−5 (4.89) | 0.14 (0.87) | 4.2 × 10−5 (4.38) |
| chr16.29349242 | Sex | 0.42 | 3.7 × 10−5 (4.43) | 0.39 (0.41) | 5.8 × 10−5 (4.24) |
| chr16.29314271 | Sex | 0.40 | 3.9 × 10−5 (4.41) | 0.40 (0.39) | 1.4 × 10−4 (3.84) |
1
Base pair position of the SNP on chromosome 16.
2
The possible covariates of additive logistic regression tests included gender and whether or not the horse was raced on the track.
3
Minor allele frequency of the SNP.
4
The resulting p-value (negative log p-value is adjacently listed in parentheses).
5
The EMP2 value after 10,000 case/control label-swapping permutations (negative log EMP2 is adjacently listed in parentheses).
6
The p-value after correcting for population stratification with the first principal component as a covariate in a mixed model with the IBD relationship matrix (negative log p-value is adjacently listed in parentheses).