SNPs associated at permuted P < 1 × 10−4 with pediatric VTE in the GWAS (stage I) after up to 1 000 000 bootstrap mutations
| Variant . | Chr . | Gene . | Alt . | Ref . | MAF . | T . | U . | OR (95% CI) . | P . | P (perm) . | No. of perm . |
|---|---|---|---|---|---|---|---|---|---|---|---|
| rs1304029 | 6 | B3GAT2 | A | G | 0.3667 | 63 | 130 | 0.4846 (0.3587-0.6547) | 1.42e-06 | 2.00e-06 | 1 000 000 |
| rs9293858 | 6 | RIMS1 | C | T | 0.2323 | 50 | 105 | 0.4762 (0.34-0.6669) | 9.98e-06 | 8.00e-06 | 1 000 000 |
| rs2748331 | 6 | B3GAT2 | G | A | 0.3042 | 58 | 118 | 0.4915 (0.359-0.673) | 6.11e-06 | 1.80e-05 | 1 000 000 |
| rs914958 | 1 | ABCA4 | G | A | 0.2323 | 51 | 102 | 0.5 (0.3573-0.6998) | 3.74e-05 | 1.80e-05 | 1 000 000 |
| rs4529013 | 4 | MAPK10 | T | C | 0.3267 | 62 | 117 | 0.5299 (0.3895-0.721) | 3.94e-05 | 2.00e-05 | 1 000 000 |
| rs9957519 | 18 | LOC105372224 | T | G | 0.1686 | 39 | 84 | 0.4643 (0.3176-0.6788) | 4.96e-05 | 2.10e-05 | 1 000 000 |
| rs1865590 | 2 | THSD7B | C | T | 0.3002 | 118 | 60 | 1.967 (1.441-2.683) | 1.38e-05 | 2.40e-05 | 1 000 000 |
| rs9606534 | 22 | IGKV2OR22-4 | G | A | 0.1509 | 34 | 80 | 0.425 (0.2845-0.6348) | 1.65e-05 | 3.30e-05 | 1 000 000 |
| rs11128790 | 3 | RFTN1 | A | G | 0.112 | 59 | 20 | 2.95 (1.777-4.899) | 1.15e-05 | 3.40e-05 | 1 000 000 |
| rs4792119 | 17 | SHISA6 | C | T | 0.2193 | 54 | 106 | 0.5094 (0.3671-0.707) | 3.94e-05 | 3.50e-05 | 1 000 000 |
| rs9399770 | 6 | LOC100996860 | T | G | 0.3667 | 73 | 132 | 0.553 (0.4155-0.736) | 3.78e-05 | 4.00e-05 | 1 000 000 |
| rs17576372 | 1 | TGFBR3 | G | A | 0.3962 | 125 | 68 | 1.838 (1.368-2.47) | 4.08e-05 | 4.57e-05 | 897 000 |
| rs10247053 | 7 | LOC105375203 | A | G | 0.2854 | 60 | 114 | 0.5263 (0.385-0.7195) | 4.25e-05 | 5.35e-05 | 767 000 |
| rs636434 | 6 | EYS | A | G | 0.3432 | 129 | 72 | 1.792 (1.343-2.39) | 5.81e-05 | 5.35e-05 | 766 000 |
| rs657152 | 9 | ABO | A | C | 0.4269 | 143 | 81 | 1.765 (1.344-2.319) | 3.44e-05 | 5.98e-05 | 686 000 |
| rs10190178 | 2 | THSD7B | A | G | 0.2998 | 115 | 60 | 1.917 (1.403-2.619) | 3.22e-05 | 6.15e-05 | 667 000 |
| rs5014872 | 2 | LOC730100 | C | A | 0.1584 | 38 | 82 | 0.4634 (0.3154-0.6808) | 5.90e-05 | 6.21e-05 | 660 000 |
| rs3823606 | 7 | TPST1 | A | G | 0.0196 | 0 | 15 | NA | 1.08e-04 | 6.27e-05 | 654 345 |
| rs10498910 | 6 | LOC105377862 | G | A | 0.1427 | 75 | 34 | 2.206 (1.471-3.308) | 8.60e-05 | 6.89e-05 | 595 000 |
| rs1565242 | 15 | LOC105370983 | G | A | 0.1368 | 32 | 72 | 0.4444 (0.2931-0.674) | 8.77e-05 | 7.23e-05 | 567 000 |
| rs1958059 | 14 | NPAS3 | T | C | 0.1686 | 37 | 82 | 0.4512 (0.3061-0.6652) | 3.71e-05 | 7.28e-05 | 563 000 |
| rs1521882 | 2 | KIAA2012 | C | T | 0.1934 | 83 | 39 | 2.128 (1.455-3.114) | 6.79e-05 | 7.48e-05 | 548 000 |
| rs17781793 | 12 | MRPL40P1 | G | A | 0.1223 | 20 | 53 | 0.3774 (0.2256-0.6311) | 1.12e-04 | 7.81e-05 | 525 000 |
| rs4775384 | 15 | RORA | T | C | 0.1274 | 25 | 61 | 0.4098 (0.2573-0.6528) | 1.04e-04 | 8.16e-05 | 502 497 |
| rs1948650 | 15 | DPH6-AS1 | T | C | 0.3297 | 112 | 61 | 1.836 (1.344-2.508) | 1.06e-04 | 8.71e-05 | 471 000 |
| rs436985 | 5 | C5orf64 | G | A | 0.395 | 78 | 135 | 0.5778 (0.4372-0.7635) | 9.40e-05 | 9.13e-05 | 449 000 |
| rs4926448 | 1 | SCCPDH | C | T | 0.4575 | 78 | 136 | 0.5735 (0.4342-0.7576) | 7.35e-05 | 9.38e-05 | 437 124 |
| rs11153626 | 6 | FAM162B | T | C | 0.2748 | 107 | 58 | 1.845 (1.34-2.54) | 1.36e-04 | 9.49e-05 | 432 000 |
| rs2214810 | 7 | LOC101928077 | G | T | 0.2854 | 61 | 113 | 0.5398 (0.3954-0.737) | 8.08e-05 | 9.62e-05 | 436 563 |
| Variant . | Chr . | Gene . | Alt . | Ref . | MAF . | T . | U . | OR (95% CI) . | P . | P (perm) . | No. of perm . |
|---|---|---|---|---|---|---|---|---|---|---|---|
| rs1304029 | 6 | B3GAT2 | A | G | 0.3667 | 63 | 130 | 0.4846 (0.3587-0.6547) | 1.42e-06 | 2.00e-06 | 1 000 000 |
| rs9293858 | 6 | RIMS1 | C | T | 0.2323 | 50 | 105 | 0.4762 (0.34-0.6669) | 9.98e-06 | 8.00e-06 | 1 000 000 |
| rs2748331 | 6 | B3GAT2 | G | A | 0.3042 | 58 | 118 | 0.4915 (0.359-0.673) | 6.11e-06 | 1.80e-05 | 1 000 000 |
| rs914958 | 1 | ABCA4 | G | A | 0.2323 | 51 | 102 | 0.5 (0.3573-0.6998) | 3.74e-05 | 1.80e-05 | 1 000 000 |
| rs4529013 | 4 | MAPK10 | T | C | 0.3267 | 62 | 117 | 0.5299 (0.3895-0.721) | 3.94e-05 | 2.00e-05 | 1 000 000 |
| rs9957519 | 18 | LOC105372224 | T | G | 0.1686 | 39 | 84 | 0.4643 (0.3176-0.6788) | 4.96e-05 | 2.10e-05 | 1 000 000 |
| rs1865590 | 2 | THSD7B | C | T | 0.3002 | 118 | 60 | 1.967 (1.441-2.683) | 1.38e-05 | 2.40e-05 | 1 000 000 |
| rs9606534 | 22 | IGKV2OR22-4 | G | A | 0.1509 | 34 | 80 | 0.425 (0.2845-0.6348) | 1.65e-05 | 3.30e-05 | 1 000 000 |
| rs11128790 | 3 | RFTN1 | A | G | 0.112 | 59 | 20 | 2.95 (1.777-4.899) | 1.15e-05 | 3.40e-05 | 1 000 000 |
| rs4792119 | 17 | SHISA6 | C | T | 0.2193 | 54 | 106 | 0.5094 (0.3671-0.707) | 3.94e-05 | 3.50e-05 | 1 000 000 |
| rs9399770 | 6 | LOC100996860 | T | G | 0.3667 | 73 | 132 | 0.553 (0.4155-0.736) | 3.78e-05 | 4.00e-05 | 1 000 000 |
| rs17576372 | 1 | TGFBR3 | G | A | 0.3962 | 125 | 68 | 1.838 (1.368-2.47) | 4.08e-05 | 4.57e-05 | 897 000 |
| rs10247053 | 7 | LOC105375203 | A | G | 0.2854 | 60 | 114 | 0.5263 (0.385-0.7195) | 4.25e-05 | 5.35e-05 | 767 000 |
| rs636434 | 6 | EYS | A | G | 0.3432 | 129 | 72 | 1.792 (1.343-2.39) | 5.81e-05 | 5.35e-05 | 766 000 |
| rs657152 | 9 | ABO | A | C | 0.4269 | 143 | 81 | 1.765 (1.344-2.319) | 3.44e-05 | 5.98e-05 | 686 000 |
| rs10190178 | 2 | THSD7B | A | G | 0.2998 | 115 | 60 | 1.917 (1.403-2.619) | 3.22e-05 | 6.15e-05 | 667 000 |
| rs5014872 | 2 | LOC730100 | C | A | 0.1584 | 38 | 82 | 0.4634 (0.3154-0.6808) | 5.90e-05 | 6.21e-05 | 660 000 |
| rs3823606 | 7 | TPST1 | A | G | 0.0196 | 0 | 15 | NA | 1.08e-04 | 6.27e-05 | 654 345 |
| rs10498910 | 6 | LOC105377862 | G | A | 0.1427 | 75 | 34 | 2.206 (1.471-3.308) | 8.60e-05 | 6.89e-05 | 595 000 |
| rs1565242 | 15 | LOC105370983 | G | A | 0.1368 | 32 | 72 | 0.4444 (0.2931-0.674) | 8.77e-05 | 7.23e-05 | 567 000 |
| rs1958059 | 14 | NPAS3 | T | C | 0.1686 | 37 | 82 | 0.4512 (0.3061-0.6652) | 3.71e-05 | 7.28e-05 | 563 000 |
| rs1521882 | 2 | KIAA2012 | C | T | 0.1934 | 83 | 39 | 2.128 (1.455-3.114) | 6.79e-05 | 7.48e-05 | 548 000 |
| rs17781793 | 12 | MRPL40P1 | G | A | 0.1223 | 20 | 53 | 0.3774 (0.2256-0.6311) | 1.12e-04 | 7.81e-05 | 525 000 |
| rs4775384 | 15 | RORA | T | C | 0.1274 | 25 | 61 | 0.4098 (0.2573-0.6528) | 1.04e-04 | 8.16e-05 | 502 497 |
| rs1948650 | 15 | DPH6-AS1 | T | C | 0.3297 | 112 | 61 | 1.836 (1.344-2.508) | 1.06e-04 | 8.71e-05 | 471 000 |
| rs436985 | 5 | C5orf64 | G | A | 0.395 | 78 | 135 | 0.5778 (0.4372-0.7635) | 9.40e-05 | 9.13e-05 | 449 000 |
| rs4926448 | 1 | SCCPDH | C | T | 0.4575 | 78 | 136 | 0.5735 (0.4342-0.7576) | 7.35e-05 | 9.38e-05 | 437 124 |
| rs11153626 | 6 | FAM162B | T | C | 0.2748 | 107 | 58 | 1.845 (1.34-2.54) | 1.36e-04 | 9.49e-05 | 432 000 |
| rs2214810 | 7 | LOC101928077 | G | T | 0.2854 | 61 | 113 | 0.5398 (0.3954-0.737) | 8.08e-05 | 9.62e-05 | 436 563 |
Alt, alternative allele; Chr, chromosome; NA, not available; no. of perm, number of applied permutations; P (perm.), empirical P value by permutations; Ref, reference allele; T, number of transmitted minor alleles; U, number of untransmitted minor alleles.