Table 1.
MHC association for a) rs3130375, the most significant genotyped SNP, stratified by sample b) imputed classical HLA alleles
| a) | |||
|---|---|---|---|
| Frequency (rs3130375, A allele) | |||
| Sample | Cases | Controls | P value |
| Scottish (Aberdeen) | 0.132 | 0.168 | 0.0060 |
| Scottish (Edinburgh) | 0.137 | 0.135 | 0.8930 |
| British (UCL) * | 0.132 | 0.143 | 0.4836 |
| Irish (TCD) | 0.110 | 0.170 | 0.0012 |
| Bulgarian (Cardiff) | 0.077 | 0.084 | 0.5602 |
| Portuguese (PIC) | 0.048 | 0.061 | 0.3510 |
| Swedish (KI, 5.0) | 0.043 | 0.119 | 0.0004 |
| Swedish (KI, 6.0) | 0.089 | 0.142 | 0.0040 |
| b) | |||
|---|---|---|---|
| HLA Allele | Frequency | Odds ratio | P value |
| HLA-A* 0101 | 0.10 | 0.79 | 4×10−5 |
| HLA-C* 0701 | 0.11 | 0.78 | 5×10−5 |
| HLA-B* 0801 | 0.07 | 0.76 | 3×10−5 |
| HLA-DRB* 0301 | 0.12 | 0.77 | 3×10−6 |
| HLA-DQB* 0201 | 0.21 | 0.86 | 4×10−4 |
| HLA-DQA* 0501 | 0.21 | 0.80 | 6×10−7 |
Total sample CMH P = 4×10−7; Breslow-Day heterogeneity test P = 0.012 (df=6)
*
SNP failed QC in UCL sample-imputed results given
Frequency is estimated population frequency.