Skip to main content
. 2013 Jun 20;8(6):e66456. doi: 10.1371/journal.pone.0066456

Table 1. Results from initial (GRACE only) meta-analysis.

SNP Gene Case/Control MAF Case MAF Control Het P OR (95% CI) ?2P
Group 1: SNPs with previous evidence of genome-wide association with RA susceptibility from Stahl meta-analysis
rs10488631 IRF5 3193/5018 0.12 0.12 0.748 1.06 (0.95,1.17) 0.297
rs13315591 PXK-FAM107A 3194/5020 0.07 0.07 0.798 1.03 (0.91,1.18) 0.612
rs26232 C5orf30/GIN1 3038/5014 0.3 0.33 0.98 0.88 (0.82,0.94) 4.68 ×10−4
rs3093023 CCR6 3037/5020 0.47 0.44 0.321 1.09 (1.02,1.17) 0.012
rs6859219 ANKRD55 3026/4950 0.18 0.21 0.792 0.87 (0.8,0.95) 0.002
rs706778 IL2RA 3007/4998 0.43 0.41 0.157 1.04 (0.97,1.11) 0.301
rs874040 RBPJ 3195/5003 0.32 0.29 0.235 1.14 (1.07,1.23) 2.18 ×10−4
rs951005 CCL21 2857/4857 0.16 0.17 0.72 0.92 (0.84,1.01) 0.069
Group 2: SNPs with previous evidence of genome-wide association with RA susceptibility from other studies
rs11586238† CD2,CD58 3195/5015 0.25 0.23 0.292 1.12 (1.03,1.21) 0.005
rs13031237† REL 3191/4952 0.37 0.36 0.147 1.06 (0.99,1.13) 0.125
rs1980422† CD28 3093/4960 0.25 0.23 0.663 1.15 (1.07,1.25) 2.98×10−4
rs2736340† BLK 3194/5021 0.26 0.24 0.655 1.14 (1.05,1.22) 0.001
rs548234† PRDM1 3192/5010 0.33 0.33 0.062 0.87 (0.8,0.95) 0.205
Group 3: SNPs not previously associated with RA susceptibility to a genome-wide significance level
rs10865035 AFF3 3189/2286 0.48 0.47 0.539 1.02 (0.94,1.11) 0.61
rs11203203 UBASH3A 3176/5009 0.38 0.37 0.196 1.00 (0.93,1.07) 0.911
rs11594656 IL2RA 3195/5014 0.24 0.25 0.534 0.98 (0.91,1.06) 0.579
rs394581 TAGAP 3190/4942 0.28 0.3 0.531 0.91 (0.84,0.98) 0.008
rs42041 CDK6 3186/5015 0.25 0.24 0.277 1.06 (0.98,1.14) 0.148
rs4535211 PLCL2 3195/5107 0.46 0.48 0.102 0.96 (0.9,1.03) 0.237
rs540386 TRAF6 2787/4600 0.13 0.14 0.071 1.05 (0.98,1.12) 0.207
rs7234029 PTPN2 3189/5014 0.18 0.16 0.092 1.15 (1.05,1.26) 0.002
rs7543174 UBE2Q1 3194/4951 0.18 0.18 0.056 1.03 (0.95,1.12) 0.508

SNPs allocated to group 1, 2 or 3 based on previously published evidence. The SNPs† in group 2 do not reach genome-wide significance in Stahl et al used in meta-analysis [6] (Table 2), but have in prior publications [4], [5]. Het P = meta-analysis heterogeneity χ2 P value, OR = odds ratio calculated using fixed or random* effects meta-analysis.