Table 3.
Results of genome-wide association (stage 1) and replication (stage 2a) analyses of GPA association.
| Combined analysis (n = 750 case patients, n = 1820 controls) |
|||||
|---|---|---|---|---|---|
| Gene | Chromosome | SNP | Nucleotide change | OR | P-value |
| HLA-DPB1 | 6 | rs9277554 | T > C | 0.24 | 1.92 × 10−50 |
| HLA-DPA1 | 6 | rs9277341 | C > T | 0.33 | 2.18 × 10−39 |
| Non-HLA region | |||||
| WSCD1 | 17 | rs7503953 | A > C | 1.50 | 1.93 × 10−7 |
| COBL | 7 | rs1949829 | T > C | 1.78 | 4.19 × 10−7 |
| CCDC86 | 11 | rs595018 | A > G | 1.46 | 1.60 × 10−7 |
| DCTD | 4 | rs4862110 | C > T | 1.44 | 2.14 × 10−6 |
| Combined analysis (n = 987 case patients, n = 2731 controls) | |||||
| SEMA6A | 5 | rs26595 | C > T | 0.74 | 2.09 × 10−8 |
|
c-ANCA-positive patients vs. controls (patients, n = 578; controls, n = 1,820) |
|||||
| Gene | Chromosome | SNP | Nucleotide change | OR | P-value |
| VCRC GWAS: associations of MHC Loci with c-ANCA-positive GPA | |||||
| HLA-DPB1 | 6 | rs9277554 | T > C | 0.16 | 4.7 × 10−57 |
| HLA-DPA1 | 6 | rs9277341 | C > T | 0.27 | 2.30 × 10−42 |
GPA, granulomatosis with poliangiitis; SNP, single-nucleotide polymorphism; OR, odds-ratio; VCRC, Vasculitis Clinical Research Consortium; ANCA, autoantibodies to neutrophils.