Table 4.
Significant genes reported by PASCAL and MAGMA algorithms. All significant genes reported in our study and Grove et al. publication are shown. Columns show chromosome, start and end positions for each gene, p-value reported by PASCAL or MAGMA, and the corresponding tag SNP for each gene.
| Gene | Chromosome | Start position | End position | PASCAL/MAGMA p-value | Tag SNP |
|---|---|---|---|---|---|
| Results from PASCAL gene based analysis | |||||
| XRN2 | 20 | 21283941 | 21370463 | 3.53 × 10−9 | rs 910805 |
| NKX2-4 | 20 | 21376004 | 21378047 | 9.51 × 10−9 | rs 910805 |
| PLK1S1 | 20 | 21106623 | 21227258 | 4.69 × 10−8 | rs 910805 |
| KCNN2 | 5 | 113698015 | 113832197 | 3.89 × 10−7 | rs 13188074 |
| NKX2-2 | 20 | 21491659 | 21494664 | 7.78 × 10−7 | rs 910805 |
| CRHR1-IT1 | 17 | 43716340 | 43723595 | 1.69 × 10−6 | rs 142920272 |
| C8orf74 | 8 | 10530146 | 10558103 | 1.78 × 10−6 | rs 10099100 |
| LOC644172 | 17 | 43677490 | 43679748 | 2.15 × 10−6 | rs 142920272 |
| Results from MAGMA gene based analysis ( Grove et al, 2019 ) | |||||
| XRN2 | 20 | 21283942 | 21370463 | 9.69 × 10−10 | rs 910805 |
| KCNN2 | 5 | 113698016 | 113832197 | 1.02 × 10−9 | rs 13188074 |
| PLK1S1 | 20 | 21106624 | 21227260 | 5.17 × 10−9 | rs 910805 |
| MACROD2 | 20 | 13976146 | 16033842 | 1.40 × 10−7 | rs 71190156 |
| WNT3 | 17 | 44841686 | 44896082 | 4.03 × 10−7 | rs 142920272 |
| MAPT | 17 | 43971748 | 44105700 | 5.01 × 10−7 | rs 142920272 |
| MFHAS1 | 8 | 8641999 | 8751131 | 5.58 × 10−7 | rs 11249905 |
| XKR6 | 8 | 10753654 | 11058875 | 8.01 × 10−7 | rs 10099100 |
| MSRA | 8 | 9911830 | 10286401 | 9.15 × 10−6 | rs 10099100 |
| CRHR1 | 17 | 43697710 | 43913194 | 1.07 × 10−6 | rs 142920272 |
| SOX7 | 8 | 10581278 | 10588022 | 1.24 × 10−6 | rs 10099100 |
| NTM | 11 | 131240371 | 132206716 | 1.32 × 10−6 | rs 549507 |
| MMP12 | 11 | 102733464 | 102745764 | 2.28 × 10−6 | rs 102751102 |
| BLK | 8 | 11351521 | 11422108 | 2.45 × 10−6 | rs 2736342 |