Table 2.
Previous genome-wide significant epistatic pairs identified from the NFBC199 cohorta (update)
| Trait | SNP1 | SNP2 | Pint | distance | LD (r2) | correct Pint |
|---|---|---|---|---|---|---|
| CRP | rs1811472b (1q23.2; 0.41) | rs2592887b (1q23.2; 0.40) | 3.0E-12 | 10 590 | 0.86 | 2.1E-01 |
| CRP | rs1811472b (1q23.2; 0.41) | rs2794520b (1q23.2; 0.36) | 3.5E-11 | 36 467 | 0.62 | 1.1E-01 |
| CRP | rs2592887b (1q23.2; 0.40) | rs2794520b (1q23.2; 0.36) | 2.9E-12 | 25 877 | 0.70 | 1.6E-01 |
| CRP | rs2650000b (12q24.31; 0.45) | rs7953249b (12q24.31; 0.48) | 2.6E-09 | 14 762 | 0.76 | 9.1E-01 |
| CRP | rs1169300b (12q24.31; 0.32) | rs2464196b (12q24.31; 0.32) | 3.4E-10 | 4202 | 0.99 | 4.1E-01 |
| GLU | rs560887b (2q31.1; 0.30) | rs563694b (2q31.1; 0.34) | 1.3E-08 | 10 923 | 0.81 | 5.2E-01 |
| HDL | rs3764261b (16q13; 0.28) | rs1532624b (16q13; 0.41) | 2.0E-14 | 12 155 | 0.53 | 6.8E-01 |
| LDL | rs157580b (19q13.32; 0.29) | rs405509 (19q13.32; 0.46) | 6.9E-10 | 13 570 | 0.35 | 1.6E-04 |
| TRI | rs1260326b (2p23.3; 0.36) | rs780094 (2p23.3; 0.36) | 5.8E-08 | 10 297 | 0.95 | 9.6E-01 |
aAll SNP pairs listed detected as marginal-SNP interactions, with the threshold of 1.5E-08 for CRP, 2.2E-08 for HDL, 3.9E-08 for GLU and LDL, 7.7E-07 for TRI; SNP1 (SNP2) – name, genomic location and minor allele frequency (the latter two in bracket) of the first (second) SNP; Pint – P-value of the interaction test; distance – the distance in base pairs between two SNPs; LD – linkage disequilibrium (in r2) between a pair of SNPs; the SNP pair in HDL was also detected via the pair-wise genome scan (P < 9.54E-13); correct Pint – the corrected P-value of the interaction test. bThe marginal-SNP.