Table 4 Results of two-way (two genes) interaction and the characteristics of genes
From: Allelic based gene-gene interactions in rheumatoid arthritis
| Â | Â | Â | Â | Â | Â | Â | p-valueb | ||
|---|---|---|---|---|---|---|---|---|---|
Gene 1 symbol (location) | Â | Gene 2 symbol (location) | SNP1a from gene 1 | SNP 2a from gene 2 | Function of SNP 1 | Function of SNP 2 | Score | F-test | Main vs. interaction |
PADI4 (1p36.13) | X | TRAF1(9q33) | rs6586516, rs2477142 | rs3761847 | 5' UTR | 5' UTR | 1.66 × 10-8 | 1.43 × 10-8 | 0.005 |
PTPN22 (1p13.3) | X | SLC22A4(5q31.1) | rs2476601 | rs2306772 | Coding | intron | 1.79 × 10-12 | 1.25 × 10-12 | 0.0054 |
PTPN2 (1p13.3) | X | IL6 (7p21) | rs2476601 | rs2905325, rs1476482, rs2106549 | Coding | 5' UTR | 3.80 × 10-13 | 2.53 × 10-13 | 0.0003 |
SLC22A4 (5q31.1) | X | TRAF1 (9q33) | rs2073838, rs2306772 | rs881375 | Intron | 3' UTR | 6.19 × 10-9 | 5.22 × 10-9 | 0.0037 |
SLC22A4 (5q31.1) | X | C5 (9q33) | rs2073838, rs2306772 | rs2900180 | Intron | 3' UTR | 1.37 × 10-9 | 1.13 × 10-9 | 0.0029 |
NFKBIL1 (6p21.3) | X | HLA-DRB1(6p21.3) | rs4947324c | rs477515, rs2516049, rs532098 | 3' UTR | 5' UTR | <1.0 × 10-15 | <1.0 × 10-15 | 0.0012 |
HLA-DRB1 (6p21.3) | X | IL6 (7p21) | rs477515, rs2516049 | rs2961280, rs2961283, rs2905308 | 5' UTR | 5' UTR | <1.0 × 10-15 | <1.0 × 10-15 | 0.0023 |
HLA-DRB1 (6p21.3) | X | RUNX1(21q22.12) | rs660895 | rs2834779 | 5' UTR | 5' UTR | <1.0 × 10-15 | <1.0 × 10-15 | 0.0028 |
HLA-DRB1 (6p21.3) | X | RUNX1 (21q22.12) | rs660895, rs532098 | rs4817699, rs8131102, rs9984470, rs9979153 | 5' UTR | Intron | <1.0 × 10-15 | <1.0 × 10-15 | 0.0037 |
TRAF1 (9q33) | X | RUNX1 (21q22.12) | rs881375d | rs4816502, rs2242720e | 3' UTR | Intron/5' UTR | 3.03 × 10-8 | 2.62 × 10-8 | 0.0027 |
TRAF1 (9q33) | X | RUNX1 (21q22.12) | rs3761847 | rs1981392, rs2834714, rs4816502, rs2242882, rs932284 | 5' UTR | Intron | 1.29 × 10-11 | 9.47 × 10-12 | 0.0001 |
C5 (9q33) | X | RUNX1 (21q22.12) | rs10760130 | rs1981392, rs2834714, rs4816502, rs2242882 | 3' UTR | Intron | 7.19 × 10-11 | 5.53 × 10-11 | 0.0001 |
C5 (9q33) | X | RUNX1 (21q22.12) | rs2900180d | rs4816502, rs2242720e | 3' UTR | Intron/5' UTR | 2.83 × 10-10 | 2.24 × 10-10 | 0.0046 |
C5 (9q33) | X | RUNX1 (21q22.12) | rs1468673, rs10818500 | rs2834714, rs4816502 | Intron | Intron | 1.85 × 10-8 | 1.59 × 10-8 | 0.0001 |