Table 3.
Haplotype analysis of rs1048661, rs3825942 and rs2165241 in PXF patients and Controls
| Estimated haplotype frequency (%) | |||||
| Haplotype | PXF | Controls | Combined | P_value | OR (95%CI) |
| GGT | 75.3 | 45.4 | 66.3 | 2.8 × 10-11 | 3.66 (2.53, 5.30) |
| TGC | 16.3 | 26.3 | 19.3 | 0.0057 | 0.54 (0.35, 0.83) |
| GAC | 1.3 | 19.7 | 6.8 | 1.9 × 10-12 | 0.05 (0.02, 0.13) |
| GGC | 6.6 | 7.2 | 6.8 | 0.78 | 0.88 (0.44, 1.74) |
| TGT | 0.6 | 0.7 | 0.6 | 0.78 | 0.85 (0.08, 9.45) |
| GAT | 0.0 | 0.6 | 0.2 | 0.11 | - |
| TAC | 0.0 | 0.0 | 0.0 | 1.00 | - |
| TAT | 0.0 | 0.0 | 0.0 | 1.00 | - |
| Total | 100.0 | 100.0 | 100.0 | 1.8 × 10-11* | - |
*This P value was obtained from the omnibus test using WHAP,31 while the other P values were obtained from the haplotype-specific test. OR was calculated for each individual haplotype compared to all the other haplotypes. 'GGT' is the combination of 'at risk' alleles at all three SNPs.