Table 1.
Association of SLE with non-HLA genes. SNPs are assigned to the nearest gene; the ideogram is given in the loc column. The p value, FDR, and rsid correspond to the most significant SNP found within a gene. Previous Association columns indicate whether a gene has previously been associated with SLE and if so, p values and an rsid are given for a representative association. The Dependent On column indicates whether a genes significance can be explained by another gene or region.
| Gene | Loc | p | FDR | rsid | Previous Association | Dependent On | ||
|---|---|---|---|---|---|---|---|---|
| Assoc. | p | rsid | ||||||
| EDEM3 | 1q25.3 | 2.3×10−13 | 2.3×10−8 | rs10911628 | No | |||
| BIN1 | 2q14.3 | 4×10−6 | 4.7×10−2 | rs12993006 | No | |||
| KCNJ3 | 2q24.1 | 2×10−6 | 3×10−2 | rs4544377 | No | |||
| STAT4 | 2q32.2 | 5.1×10−9 | 1.9×10−4 | rs7574865 | Yes [33] | 8.2×10−14 | rs7574865 | |
| CNTN6 | 3p26.3 | 9.8×10−8 | 2.4×10−3 | rs4684256 | No | |||
| SEC61G | 7p11.2 | 1.8×10−6 | 2.9×10−2 | rs6946131 | No | |||
| IRF5 | 7q32.1 | 7.1×10−10 | 3×10−5 | rs4728142 | Yes [34] | 4.4×10−7 | rs2004640 | |
| TNPO3 | 7q32.1 | 1.5×10−13 | 2.1×10−8 | rs10488631 | Yes [35] | 6.4×10−13 | rs12531711 | |
| MTG1 | 10q26.3 | 3.3×10−6 | 4.5×10−2 | rs10857712 | No | |||
| EHF | 11p13 | 1.9×10−7 | 4×10−3 | rs10466455 | No | |||
| FAM98B | 15q14 | 9.9×10−15 | 2.9×10−9 | rs11073328 | No | |||
| TYRO3 | 15q15.1 | 3.4×10−6 | 4.5×10−2 | rs12259 | No3 [36] | FAM98B | ||
| SPATA8 | 15q26.2 | 1.2×10−8 | 4×10−4 | rs8023715 | No | |||
| ITGAM | 16p11.2 | 4.3×10−11 | 2.1×10−6 | rs9888739 | Yes [37] | 6.9×10−22 | rs1143679 | |
| MED1 | 17q12 | 6.7×10−7 | 1.2×10−2 | rs11655550 | No | |||
| RASSF2 | 20p13 | 2.1×10−6 | 3×10−2 | rs6084875 | No | |||
| RNF114 | 20q13.13 | 1.4×10−11 | 8×10−7 | rs11697848 | No | |||
3
Essential for the prevention of lupus-like autoimmunity via innate inflammatory responses