Table 3.
VEGAS2 gene-level analysis of the additive TTT and OS models. Genes with a BH-adjusted P-value < 0.1 are shown
| Gene | nSNPs | nSims | Test | P value | TopSNP | TopSNP.p value | BH-ajdusted p-value |
|---|---|---|---|---|---|---|---|
| VEGAS2 Analysis of TTT | |||||||
| AURKAIP1 | 2 | 1.00E+06 | 26.72 | 1.00E-06 | rs2765035 | 2.28E-04 | 6.90E-03 |
| NIFK | 4 | 1.00E+06 | 36.22 | 1.00E-06 | rs17016977 | 5.69E-06 | 6.90E-03 |
| RIPK3 | 7 | 1.00E+06 | 22.32 | 2.00E-06 | rs28379107 | 0.02 | 9.20E-03 |
| SIK1 | 3 | 1.00E+06 | 31.07 | 9.00E-06 | rs3746951 | 2.32E-05 | 0.03 |
| ZCCHC7 | 2 | 1.00E+06 | 23.2 | 1.10E-05 | rs3780333 | 3.84E-06 | 0.03 |
| ABCA7 | 18 | 1.00E+06 | 88.04 | 2.30E-05 | rs3752230 | 3.22E-04 | 0.05 |
| PEX26 | 7 | 1.00E+06 | 83.49 | 2.70E-05 | rs361807 | 4.31E-07 | 0.05 |
| AARS | 3 | 1.00E+06 | 17.21 | 4.10E-05 | rs2070203 | 2.34E-03 | 0.06 |
| NIFK-AS1 | 3 | 1.00E+06 | 24.72 | 4.50E-05 | rs17016977 | 5.69E-06 | 0.06 |
| TSPO | 2 | 1.00E+06 | 24.36 | 4.60E-05 | rs6971 | 7.18E-05 | 0.06 |
| MARCH.10 | 2 | 1.00E+06 | 20.45 | 4.80E-05 | rs72842201 | 6.13E-06 | 0.06 |
| LOC574538 | 3 | 1.00E+06 | 24.15 | 7.20E-05 | rs56204927 | 1.94E-04 | 0.08 |
| SEC24D | 10 | 1.00E+06 | 44.69 | 7.60E-05 | rs115446044 | 1.09E-03 | 0.08 |
| TTLL12 | 9 | 1.00E+06 | 54.06 | 9.90E-05 | rs9463 | 3.11E-06 | 0.1 |
| GALNT11 | 4 | 1.00E+06 | 15.18 | 1.07E-04 | rs146169444 | 0.01 | 0.1 |
| VEGAS2 Analysis of OS | |||||||
| CLUAP1 | 7 | 1.00E+06 | 57.76 | 1.00E-06 | rs78851263 | 3.27E-04 | 6.17E-03 |
| TTC32 | 5 | 1.00E+06 | 66.51 | 1.00E-06 | rs2304588 | 7.36E-07 | 6.17E-03 |
| DRD3 | 2 | 1.00E+06 | 21.54 | 4.00E-06 | rs3732783 | 9.77E-06 | 0.02 |
| RAD51AP2 | 7 | 1.00E+06 | 22.31 | 6.00E-06 | rs62130401 | 0.02 | 0.02 |
| RIPK3 | 8 | 1.00E+06 | 18.64 | 1.30E-05 | rs3212251 | 0.01 | 0.03 |
| EPYC | 2 | 1.00E+06 | 17.78 | 2.00E-05 | rs76171854 | 3.25E-04 | 0.03 |
| TENM4 | 13 | 1.00E+06 | 75.05 | 2.10E-05 | rs1790557 | 1.16E-05 | 0.03 |
| GTPBP1 | 6 | 1.00E+06 | 17.81 | 2.30E-05 | rs16999297 | 6.42E-03 | 0.03 |
| GAMT | 2 | 1.00E+06 | 17.56 | 2.80E-05 | rs266809 | 8.65E-05 | 0.03 |
| DCP1B | 16 | 1.00E+06 | 61.9 | 3.00E-05 | rs150660202 | 7.13E-03 | 0.03 |
| MIR548D1 | 3 | 1.00E+06 | 17.35 | 3.30E-05 | rs12141159 | 4.48E-04 | 0.03 |
| MIR548AA1 | 3 | 1.00E+06 | 17.35 | 3.40E-05 | rs12141159 | 4.48E-04 | 0.03 |
| WDR35 | 14 | 1.00E+06 | 89.29 | 5.90E-05 | rs2293671 | 1.43E-06 | 0.06 |
| BNIPL | 6 | 1.00E+06 | 23.11 | 7.40E-05 | rs955955 | 2.91E-03 | 0.06 |
| KARS | 3 | 1.00E+06 | 15.43 | 1.05E-04 | rs148298278 | 1.28E-04 | 0.09 |
| ACO1 | 13 | 1.00E+06 | 57.84 | 1.26E-04 | rs56127964 | 3.88E-06 | 0.1 |
| PARP6 | 3 | 1.00E+06 | 21.16 | 1.33E-04 | rs76774695 | 7.96E-06 | 0.1 |