Table 6.
Breed-wise average allele frequencies in the high and low risk breed dataset
|
SNP |
Allele frequency (minor allele) |
|||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Minor allele | Boxer | Cocker Spaniel | Dachshund | English Setter | Standard Poodle | Beagle | Bernese Mountain Dog | Collie | Shetland Sheepdog | |
|
BRCA2 5UTR |
T |
0.138 |
0.589 |
0.682 |
0.177 |
0.167 |
0.244 |
0.904 |
0.524 |
0.330 |
|
BRCA2 EX 5 |
C |
0.130 |
0.848 |
0.292 |
0.160 |
0.720 |
0.141 |
0.684 |
0.055 |
0.011 |
|
BRCA2 EX 11 |
G |
0.202 |
0.141 |
0.417 |
0.020 |
0.100 |
0.160 |
0.245 |
0.556 |
0.436 |
|
BRCA2 INT 18-19 |
G |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.463 |
0.117 |
|
BRIP1 INT 8-9a |
G |
0.660 |
0.000 |
0.021 |
0.000 |
0.010 |
0.021 |
0.020 |
0.000 |
0.000 |
|
BRIP1 INT 15-16 |
T |
0.652 |
0.000 |
0.021 |
0.000 |
0.010 |
0.021 |
0.020 |
0.000 |
0.000 |
|
BRIP1 EX 19b |
T |
0.872 |
0.705 |
0.187 |
0.120 |
0.837 |
0.489 |
0.204 |
0.033 |
0.809 |
|
CHEK2 INT 5-6 |
G |
0.033 |
0.159 |
0.073 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
|
CHEK2 INT 8-9 |
G |
0.670 |
0.120 |
0.271 |
0.270 |
0.050 |
0.064 |
0.073 |
0.000 |
0.021 |
|
ESR1 EX 2 |
T |
0.967 |
0.772 |
0.729 |
0.410 |
0.310 |
0.670 |
0.102 |
0.213 |
0.234 |
|
ESR1 EX 4 |
G |
0.011 |
0.043 |
0.000 |
0.000 |
0.240 |
0.053 |
0.000 |
0.791 |
0.766 |
|
ESR1 INT 7-8a |
A |
0.000 |
0.083 |
0.044 |
0.600 |
0.000 |
0.000 |
0.942 |
0.000 |
0.000 |
|
ERBB2 INT1-2 |
T |
0.106 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
|
ERBB2 INT 3-4 |
G |
0.033 |
0.326 |
0.365 |
0.720 |
0.173 |
0.223 |
0.918 |
0.637 |
0.936 |
|
ERBB2 INT 8-9 |
G |
0.043 |
0.318 |
0.052 |
0.020 |
0.000 |
0.109 |
0.000 |
0.000 |
0.000 |
|
ERBB2 INT 12-13b |
A |
0.915 |
0.533 |
0.542 |
0.240 |
0.230 |
0.798 |
0.071 |
0.225 |
0.043 |
|
ERBB2 EX 13a |
G |
0.223 |
0.000 |
0.000 |
0.000 |
0.000 |
0.000 |
0.020 |
0.000 |
0.000 |
|
ERBB2 EX 13b |
T |
0.926 |
0.533 |
0.531 |
0.240 |
0.230 |
0.798 |
0.071 |
0.233 |
0.043 |
|
ERBB2 EX 14 |
A |
0.021 |
0.250 |
0.260 |
0.460 |
0.260 |
0.170 |
0.561 |
0.451 |
0.870 |
|
PTEN INT 3-4 |
G |
0.021 |
0.413 |
0.031 |
0.450 |
0.040 |
0.128 |
0.000 |
0.538 |
0.734 |
|
PTEN INT 7-8 |
A |
0.000 |
0.076 |
0.000 |
0.470 |
0.340 |
0.128 |
0.010 |
0.544 |
0.766 |
|
PTEN EX 9 |
T |
0.000 |
0.076 |
0.000 |
0.450 |
0.020 |
0.128 |
0.000 |
0.538 |
0.734 |
| STK11 INT 1-2 | T | 0.394 | 0.348 | 0.156 | 0.010 | 0.310 | 0.213 | 0.745 | 0.467 | 0.011 |