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Table 1 CLARITY association replication results

From: Independent confirmation of juvenile idiopathic arthritis genetic risk loci previously identified by immunochip array analysis

Gene SNP Minor allele Case MAF/Control MAF   Allelic Best Immunochip Replicationc
P OR (95% CI) Pa Pb OR (95% CI)
13q14 rs34132030 T 0.30/0.30 0.82 1.02 (0.85-1.24) 0.68 D 1.77 × 10-7 A 1.18(1.11-1.26) N
AFF3-LONRF2 rs6740838 T 0.44/0.41 0.25 1.11 (0.93-1.32) 0.042 R 8.83 × 10-7 D 1.25(1.14-1.37) Y
ANKRD55 rs71624119 A 0.20/0.23 0.10 0.83 (0.67-1.03) 0.081 R 4.40 × 10-11 A 0.78(0.73-0.84) S
ATP8B2-IL6R rs11265608 A 0.08/0.07 0.50 1.12 (0.81-1.55) 0.50 T 2.75 × 10-8 D 1.33(1.20-1.47) N
C5orf56-IRF1 rs4705862 T 0.42/0.45 0.11 0.87 (0.73-1.04) 0.033 D 1.02 × 10-8 A 0.84(0.79-0.89) Y
CCR1-CCR3 rs79893749 T 0.09/0.11 0.10 0.78 (0.58-1.05) 0.10 A 1.88 × 10-7 A 0.78(0.72-0.86) S
ERAP2-LNPEP rs27290 G 0.47/0.39 0.00021 1.40 (1.17-1.66) 0.00021 A 7.50 × 10-9 D 1.32(1.20-1.45) Y
FAS rs7069750 G 0.47/0.45 0.19 1.12 (0.94-1.34) 0.19 A 2.93 × 10-8 A 1.18(1.11-1.25) S
IL2-IL21 rs1479924 G 0.27/0.28 0.54 0.94 (0.77-1.15) 0.16 R 6.24 × 10-11 A 0.79(0.74-0.85) S
IL2RB rs2284033 A 0.40/0.43 0.24 0.90 (0.75-1.08) 0.18 D 1.55 × 10-8 A 0.84(0.79-0.89) S
IL6 rs7808122 T 0.41/0.40 0.76 1.03 (0.86-1.23) 0.59 R 5.80 × 10-8 A 1.19(1.11-1.25) N
JAZF1 rs10280937 C 0.15/0.14 0.77 1.04 (0.81-1.33) 0.74 D 6.60 × 10-7 A 1.25(1.15-1.37) N
LTBR rs2364480 C 0.26/0.27 0.65 0.96 (0.78-1.16) 0.49 R 5.10 × 10-8 A 1.20(1.12-1.28) N
PRR5L rs4755450 A 0.34/0.38 0.043 0.83 (0.69-0.99) 0.042 D 3.35 × 10-7 D 0.80(0.74-0.87) Y
RUNX1 rs9979383 C 0.32/0.37 0.013 0.79 (0.66-0.95) 0.013 A 1.06 × 10-8 D 0.78(0.72-0.85) Y
RUNX3 rs4648881 A 0.48/0.50 0.37 0.92 (0.78-1.10) 0.19 D 4.66 × 10-7 A 1.16(1.10-1.23) S*
TYK2 rs34536443 C 0.02/0.03 0.10 0.63 (0.36-1.10) 0.10 A 1.00 × 10-10 A 0.56(0.47-0.67) S
UBE2L3 rs2266959 T 0.23/0.19 0.040 1.25 (1.01-1.55) 0.036 T 6.20 × 10-9 D 1.24(1.15-1.33) Y
ZFP36L1 rs12434551 T 0.46/0.45 0.61 1.05 (0.88-1.25) 0.50 R 1.59 × 10-8 D 0.77(0.71-0.85) N
  1. aModel providing most significant P value: A = allelic, D = dominant, G = genotypic, R = recessive, T = trend (Cochrane-Armitage Trend Test, also referred to as additive).
  2. bImmunochip model: A = additive, D = dominant.
  3. cEvidence for replication Y = yes N = no S = suggestive * = opposite direction of effect due to the minor allele being opposite between the two studies.
  4. Bold = reached genome-wide significance in Immunochip paper.