Table 2.
The features of 67 significant pleiotropic genes.
| Locus | Gene | Chr | Number of SNPs | r-value | MetaCCA P-value | Gene type |
|---|---|---|---|---|---|---|
| 1 | ADAD1a | 4 | 3 | 0.08 | 1.05E-30 | Confirmed |
| 2 | ADCY5 | 3 | 11 | 0.05 | 1.44E-06 | Novel* |
| 3 | AHI1 | 6 | 13 | 0.12 | 2.03E-87 | Confirmed |
| 4 | ATG5 | 6 | 19 | 0.05 | 1.53E-16 | Confirmed |
| 5 | C1orf106 | 1 | 14 | 0.08 | 1.82E-33 | Confirmed |
| 6 | C1orf141a | 1 | 1 | 0.05 | 7.70E-11 | Novel |
| 7 | C5orf56 | 5 | 12 | 0.06 | 1.87E-16 | Novel* |
| 8 | CALUa | 7 | 6 | 0.05 | 2.10E-10 | Novel |
| 9 | CCDC136a | 7 | 2 | 0.08 | 3.51E-25 | Novel |
| 10 | CD58 | 1 | 8 | 0.05 | 5.43E-13 | Confirmed |
| 11 | CIITAa | 16 | 8 | 0.07 | 4.85E-28 | Confirmed |
| 12 | CLEC16Aa | 16 | 47 | 0.10 | 9.26E-85 | Confirmed |
| 13 | CUL2 | 10 | 9 | 0.06 | 2.56E-19 | Novel* |
| 14 | CUX2 | 12 | 42 | 0.08 | 2.28E-34 | Novel* |
| 15 | DEAF1 | 11 | 9 | 0.05 | 7.99E-14 | Novel* |
| 16 | DGKQ | 4 | 1 | 0.05 | 1.61E-15 | Novel* |
| 17 | DNMT1 | 19 | 10 | 0.04 | 6.97E-07 | Novel |
| 18 | EFR3Ba | 2 | 11 | 0.13 | 1.70E-99 | Novel* |
| 19 | ERAP2 | 5 | 11 | 0.09 | 1.77E-49 | Confirmed |
| 20 | EVI5 | 1 | 15 | 0.06 | 4.08E-19 | Novel* |
| 21 | FGF2a | 4 | 13 | 0.06 | 1.78E-08 | Novel |
| 22 | FYCO1 | 3 | 6 | 0.05 | 2.73E-11 | Novel |
| 23 | GRIP1 | 12 | 67 | 0.12 | 2.20E-62 | Novel |
| 24 | HNF1B | 17 | 4 | 0.06 | 2.17E-10 | Novel* |
| 25 | IKZF1 | 7 | 17 | 0.05 | 4.37E-10 | Confirmed |
| 26 | IKZF3 | 17 | 2 | 0.18 | 2.57E-203 | Confirmed |
| 27 | IL22RA2 | 6 | 3 | 0.04 | 1.55E-11 | Novel* |
| 28 | IL23Ra | 1 | 9 | 0.23 | 1.00E-232 | Confirmed |
| 29 | INPP1 | 2 | 1 | 0.04 | 3.40E-06 | Novel |
| 30 | IRF1 | 5 | 1 | 0.11 | 6.56E-72 | Confirmed |
| 31 | ITGAM | 16 | 8 | 0.09 | 2.41E-48 | Novel* |
| 32 | JAK2 | 9 | 11 | 0.14 | 6.34E-118 | Confirmed |
| 33 | KIAA1109 | 4 | 24 | 0.05 | 5.27E-16 | Confirmed |
| 34 | LINC00271 | 6 | 9 | 0.04 | 1.22E-08 | Novel* |
| 35 | LOC101927051a | 22 | 8 | 0.05 | 5.60E-11 | Novel |
| 36 | LOC285626 | 5 | 2 | 0.12 | 3.83E-97 | Novel |
| 37 | LTF | 3 | 5 | 0.04 | 5.48E-09 | Novel |
| 38 | MACROD2 | 20 | 15 | 0.04 | 9.46E-07 | Novel* |
| 39 | MAGI3a | 1 | 18 | 0.06 | 7.55E-24 | Confirmed |
| 40 | MAP3K7 | 6 | 2 | 0.11 | 2.77E-66 | Confirmed |
| 41 | MAP4K4a | 2 | 32 | 0.07 | 3.30E-24 | Novel |
| 42 | MPZL3a | 11 | 2 | 0.04 | 5.37E-09 | Novel |
| 43 | MST1R | 3 | 1 | 0.08 | 3.72E-37 | Confirmed |
| 44 | NSD1 | 5 | 9 | 0.07 | 1.16E-25 | Novel |
| 45 | PAPOLGa | 2 | 5 | 0.04 | 7.00E-08 | Novel |
| 46 | PLCL2 | 3 | 23 | 0.05 | 2.97E-17 | Confirmed |
| 47 | PRKAA1 | 5 | 3 | 0.06 | 4.54E-18 | Novel |
| 48 | PTPN2a | 18 | 11 | 0.05 | 1.06E-09 | Confirmed |
| 49 | PUS10 | 2 | 10 | 0.13 | 5.93E-101 | Confirmed |
| 50 | RBM17a | 10 | 5 | 0.06 | 2.49E-25 | Novel* |
| 51 | RNASET2 | 6 | 2 | 0.04 | 1.22E-08 | Confirmed |
| 52 | SH3BP1a | 22 | 8 | 0.05 | 5.60E-11 | Novel |
| 53 | SHISA5 | 3 | 2 | 0.14 | 5.12E-118 | Novel |
| 54 | SLC26A4 | 7 | 2 | 0.08 | 1.29E-35 | Novel |
| 55 | THADA | 2 | 50 | 0.15 | 9.70E-149 | Confirmed |
| 56 | TNFAIP3 | 6 | 2 | 0.08 | 6.86E-33 | Confirmed |
| 57 | TNIK | 3 | 44 | 0.11 | 3.66E-54 | Novel |
| 58 | TNIP1 | 5 | 23 | 0.07 | 3.52E-34 | Confirmed |
| 59 | TNS1 | 2 | 11 | 0.07 | 1.56E-18 | Novel |
| 60 | TP63 | 3 | 31 | 0.07 | 1.05E-26 | Novel |
| 61 | TRPV4 | 12 | 11 | 0.04 | 2.37E-09 | Confirmed |
| 62 | TTC34 | 1 | 2 | 0.04 | 1.98E-09 | Confirmed |
| 63 | TYK2 | 19 | 5 | 0.04 | 1.06E-06 | Confirmed |
| 64 | USP34 | 2 | 11 | 0.18 | 9.72E-217 | Novel |
| 65 | WDR78 | 1 | 13 | 0.10 | 4.90E-52 | Novel |
| 66 | WNT11 | 11 | 3 | 0.06 | 4.60E-19 | Novel* |
| 67 | ZNF365 | 10 | 39 | 0.17 | 1.41E-164 | Novel* |
Confirmed: This gene was previously reported to be associated with more than one autoimmune/autoinflammatory disease.
Novel*: This gene had been reported to be associated with only one autoimmune/autoinflammatory disease.
Novel: This gene had never been reported to be associated with any autoimmune/autoinflammatory disease.
a
This gene was associated with more than one autoimmune/autoinflammatory disease in the VEGAS2 analysis.