Table 3.
Top eight 3-way SNP-combinations with p-values from G-test less than 1e-11 (the last three columns respectively are the p-value of G-test, p-value of chi-square and the prediction accuracy of SVM (Support Vector Machine)).
SNP1 | SNP2 | SNP3 | 3-way SNP combination | ||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
name | chromo | p-value | name | chromo | p-value | name | chrom | p-value | G-test | Chi-sq | SVM |
rs380390 | 1 | 6.2E-07 | rs2421596 | 2 | 9.8E-02 | rs555174 | 21 | 7.9E-04 | 1.2E-12 | 0 | 82.2% |
rs3915771 | 5 | 7.7E-04 | rs1360333 | 1 | 9.1E-02 | rs380390 | 1 | 6.2E-07 | 3.0E-12 | 0 | 74.7% |
rs3915771 | 5 | 7.7E-04 | rs380390 | 1 | 6.2E-07 | rs2377257 | 3 | 8.8E-01 | 5.7E-12 | 0 | 76.7% |
rs10515262 | 5 | 1.9E-03 | rs10501439 | 11 | 1.6E-04 | rs1363688 | 5 | 3.8E-05 | 7.6E-12 | 0 | 77.4% |
rs1360333 | 1 | 9.1E-02 | rs380390 | 1 | 6.2E-07 | rs1943581 | 18 | 2.8E-01 | 8.0E-12 | 0 | 74.7% |
rs417637 | 17 | 2.2E-03 | rs10272438 | 7 | 9.7E-06 | rs1363688 | 5 | 3.8E-05 | 8.3E-12 | 0 | 76.7% |
rs10272438 | 7 | 9.7E-06 | rs10512413 | 9 | 2.1E-04 | rs1510134 | 4 | 7.8E-04 | 8.6E-12 | 0 | 80.1% |
rs380390 | 1 | 6.2E-07 | rs1943581 | 18 | 2.8E-01 | rs2377257 | 3 | 8.8E-01 | 9.7E-12 | 0 | 70.5% |