Table 5.
Genomic regions and corresponding lead SNPs identified by single- and multi-locus GWAS for the Ca/P ratio.
| Lead SNP | SSC1 | SNP position | 95% confidence interval (Mb)2 | –log10 (P-value) | Bayes factor | MAF3 | % Var4 |
|---|---|---|---|---|---|---|---|
| ASGA0000047 | 1 | 477400 | 0.477 ± 0.002 | 3.88 | 10.59 | 0.424 | 3.2 |
| M1GA0001253 | 1 | 180934106 | 180.936 ± 0.005 | 4.39 | 2.66 | 0.477 | 3.7 |
| ALGA0030823 | 5 | 15372183 | 15.372 ± 0.001 | 4.45 | 11.77 | 0.320 | 3.7 |
| ALGA0118376 | 8 | 18998044 | 18.999 ± 0.000 | 5.68 | 1.84 | 0.054 | 4.9 |
| ASGA0041852 | 9 | 14569966 | 14.570 ± 0.000 | 4.50 | 1.37 | 0.277 | 3.8 |
| ASGA0056810 | 13 | 25360591 | 25.361 ± 0.001 | 3.54 | 22.43 | 0.490 | 2.9 |
| MARC0060323 | 14 | 33722981 | 33.724 ± 0.000 | 4.57 | 5.00 | 0.398 | 3.8 |
| INRA0045347 | 14 | 84495128 | 84.496 ± 0.002 | 5.26 | 8.31 | 0.314 | 4.5 |
| INRA0045383 | 14 | 86273463 | 86.898 ± 0.003 | 4.65 | 5.24 | 0.255 | 3.9 |
| ALGA0113690 | 15 | 26316801 | 26.316 ± 0.002 | 5.05 | 7.25 | 0.281 | 4.3 |
| MARC0009678 | 17 | 44751346 | 44.753 ± 0.002 | 4.59 | 4.43 | 0.163 | 3.8 |
1Sus scrofa chromosome; 2Calculated according to Li’s method (Li, 2011); 3Minor allele frequency; 4Explained proportion of the phenotypic variance by the lead SNP.