TABLE 4.
Significant tests for G×G interaction among 111 markers in 10 different FGF/FGFR genes in 297 CL/P case-parent trios from 4 populations based on 4df LRT testing for 2-way interaction
| First gene | Second gene | Marker 1 | Marker 2 | Test statistic | P-value | ||
|---|---|---|---|---|---|---|---|
| Gene snpl | Chr snpl | Gene snp2 | Chr snp2 | SNP1 | SNP2 | ||
| FGF18 | 5 | FGF10 | 5 | RS4559013 | RS11750845 | 14.255 | 0.0065 |
| FGF18 | 5 | FGF10 | 5 | RS4076077 | RS11750845 | 14.300 | 0.0064 |
| FGF18 | 5 | FGF10 | 5 | RS4076077 | RS1482679 | 14.156 | 0.0068 |
| FGF18 | 5 | FGF10 | 5 | RS3934591 | RS1482679 | 17.743 | 0.0014 |
| FGF18 | 5 | FGFR1 | 8 | RS6887323 | RS2978073 | 13.604 | 0.0087 |
| FGF18 | 5 | FGF3 | 11 | RS6887323 | RS1893047 | 15.135 | 0.0044 |
| FGF18 | 5 | FGF3 | 11 | RS2043278 | RS11263592 | 14.199 | 0.0067 |
| FGF18 | 5 | FGF3 | 11 | RS2043278 | RS1893047 | 13.958 | 0.0074 |
| FGF18 | 5 | FGF9 | 13 | RS2043278 | RS12870202 | 23.854 | 0.0001* |
| FGFR2 | 10 | FGF10 | 5 | RS2981430 | RS593307 | 13.556 | 0.0089 |
| FGFR2 | 10 | FGF10 | 5 | RS2981430 | RS339502 | 13.815 | 0.0079 |
| FGFR2 | 10 | FGF10 | 5 | RS2981430 | RS1384449 | 14.338 | 0.0063 |
| FGFR2 | 10 | FGFR1 | 8 | RS2981427 | RS4733930 | 15.973 | 0.0031 |
| FGF3 | 11 | FGFBP1 | 4 | RS11263592 | RS732245 | 13.590 | 0.0087 |
| FGF3 | 11 | FGFBP1 | 4 | RS11263587 | RS732245 | 13.563 | 0.0088 |
| FGF9 | 13 | FGFR1 | 8 | RS6490667 | RS4733930 | 14.010 | 0.0073 |
*
Only this 2–SNP interaction remained significant after 1,000 permutations with P value of 0.019.