Table 4.
Top 20 associated windowsa |
SNP with highest model frequency within window |
||||||||
---|---|---|---|---|---|---|---|---|---|
ECAb |
Position (Mb)c |
% of genetic variance explainedd |
Number of SNP |
% of iterations where variance explained > 0.04%e |
SNP name |
SNP position (bp) |
Model frequencyf |
Allele frequencyg |
|
Cases | Controls | ||||||||
3 |
8 |
0.143 |
21 |
2.8 |
BIEC2_810809 |
8,098,240 |
0.29 |
0.67 |
0.54 |
3 |
17 |
0.141 |
30 |
3.1 |
BIEC2_773375 |
17,036,655 |
0.38 |
0.62 |
0.46 |
3 |
50 |
0.270 |
27 |
3.8 |
BIEC2_779930 |
50,444,836 |
0.68 |
0.45 |
0.29 |
3 |
51 |
0.161 |
25 |
3.2 |
BIEC2_780595 |
51,525,184 |
0.35 |
0.58 |
0.43 |
7 |
67 |
0.149 |
27 |
3.3 |
BIEC2_1005528 |
67,597,722 |
0.36 |
0.67 |
0.54 |
7 |
85 |
0.171 |
24 |
2.9 |
BIEC2_1010550 |
85,800,251 |
0.29 |
0.64 |
0.52 |
8 |
63 |
0.231 |
22 |
3.8 |
BIEC2_1058160 |
63,839,900 |
0.47 |
0.59 |
0.44 |
11 |
22 |
0.201 |
21 |
3.6 |
BIEC2_143974 |
22,769,190 |
0.32 |
0.50 |
0.35 |
11 |
23 |
0.149 |
24 |
3.1 |
BIEC2_144465 |
23,873,176 |
0.31 |
0.59 |
0.45 |
11 |
26 |
0.178 |
26 |
3.3 |
BIEC2_145801 |
26,946,633 |
0.20 |
0.51 |
0.39 |
11 |
32 |
0.193 |
31 |
4.1 |
BIEC2_149137 |
32,010,755 |
0.37 |
0.27 |
0.13 |
17 |
1 |
0.141 |
24 |
2.7 |
BIEC2_366411 |
1,024,001 |
0.27 |
0.45 |
0.31 |
17 |
6 |
0.147 |
28 |
2.6 |
BIEC2_367597 |
6,640,619 |
0.29 |
0.65 |
0.51 |
17 |
75 |
0.303 |
23 |
4.4 |
BIEC2_384363 |
75,401,514 |
0.67 |
0.67 |
0.52 |
17 |
76 |
0.159 |
18 |
2.3 |
BIEC2_385267 |
76,776,877 |
0.81 |
0.70 |
0.55 |
20 |
35 |
0.624 |
23 |
5.3 |
UKUL3474 |
35,643,200 |
2.03 |
0.56 |
0.37 |
20 |
41 |
0.176 |
21 |
2.9 |
BIEC2_532511 |
41,520,518 |
0.84 |
0.45 |
0.28 |
23 |
14 |
0.143 |
25 |
2.8 |
TBIEC2_645769 |
14,286,784 |
0.16 |
0.36 |
0.27 |
27 |
13 |
0.214 |
18 |
3.2 |
BIEC2_705454 |
13,198,799 |
0.78 |
0.71 |
0.54 |
28 | 41 | 0.154 | 24 | 3.2 | BIEC2_744415 | 41,130,845 | 0.24 | 0.73 | 0.61 |
atop 20 1 Mb non-overlapping windows explaining the largest percentages of genetic variance; bEquus caballus autosome; cposition of the window in Mb pairs, where for instance window position 8 Mb includes SNP located on that particular chromosome between 8 to 9 Mb; dpercentage of total genetic variance explained by 1 Mb non-overlapping windows of consecutive SNP based on physical order (build EquCab2.0), averaged across post burn-in iterations, thereby including results from iterations that excluded the window from the model; epercentage of iterations (out of 1799 saved) during which the window captured over 0.04% of genomic variance (i.e. the expected percentage of variance explained by each window in an infinitesimal model); fpercentage of iterations where SNP was modelled to have an effect; gfrequency of the unfavourable allele.