Table 1

Allelic association analysis of the twelve chromosome 11 SNPs with gout
East Polynesian (EP) (High) East Polynesian (Low) West Polynesian (WP) East/West Polynesian European Caucasian
SNPb Chr:Posc Effect/Otherd Allele Freq. ORe (95% CI) Pe Allele Freq. ORe (95% CI) Pe Allele Freq. ORe (95% CI) Pe Allele Freq. ORe (95% CI) Pe Allele Freq. ORe (95% CI) Pe
Case Con Case Con Case Con Case Con Case Con
1a T/C 0.571 0.531 1.19 0.257 0.566 0.601 1.01 0.957 0.403 0.409 1.06 0.758 0.500 0.400 1.65 0.412 0.566 0.564 1.02 0.868
(0.88,1.61) (0.63,1.64) (0.75,1.49) (0.50,5.48) (0.84,1.24)
1 rs17299124 11:64256859 C/A 0.976 0.950 2.77 0.019 0.821 0.801 1.20 0.577 0.994 0.957 5.65 0.011 0.974 0.947 3.00 0.461 0.733 0.752 0.91 0.401
(1.18,6.50) (0.63,2.32) (1.49,21.39) (0.16,55.71) (0.73,1.14)
2 rs693591 11:64325069 C/G 0.522 0.449 1.41 0.031 0.315 0.291 1.13 0.630 0.373 0.367 1.00 0.992 0.526 0.260 4.55 0.025 0.139 0.135 0.95 0.733
(1.03,1.92) (0.68,1.89) (0.72,1.40) (1.21,17.06) (0.72-1.26)
2 rs17300741 11:64331462 A/G 0.819 0.789 1.30 0.187 0.604 0.557 1.29 0.312 0.808 0.830 0.76 0.213 0.806 0.750 1.42 0.595 0.476 0.439 1.05 0.611
(0.88,1.91) (0.78,2.14) (0.49,1.17) (0.39,5.24) (0.87,1.27)
2 rs2078267 11:64334114 C/T 0.938 0.910 1.78 0.063 0.651 0.606 1.19 0.526 0.980 0.944 2.20 0.071 0.921 0.886 1.21 0.815 0.479 0.456 0.98 0.816
(0.97,3.26) (0.70,2.00) (0.94,5.17) (0.24,6.11) ([0.81,1.18]
3 rs3825018 11:64358809 G/A 0.739 0.674 1.46 0.028 0.500 0.447 1.37 0.206 0.726 0.712 1.16 0.404 0.842 0.660 1.83 0.316 0.305 0.267 1.22 0.065
(1.04,2.06)] (0.84,2.23) (0.82,1.66) (0.56,5.98) (0.99,1.50)
3 rs475688 11:64364291 T/C 0.433 0.427 1.10 0.543 0.370 0.295 1.66 0.073 0.409 0.461 0.78 0.145 0.556 0.420 1.72 0.391 0.269 0.236 1.26 0.043
(0.80,1.52) (0.95,2.89) (0.56,1.09) (0.50,5.97) ([1.01,1.57)
3 rs7932775 11:64367862 C/T 0.496 0.478 1.03 0.866 0.373 0.320 1.36 0.278 0.489 0.415 1.49 0.019 0.500 0.396 1.00 1.000 0.213 0.174 1.32 0.033
(0.76,1.40) (0.78,2.35) (1.07,2.09) (0.35,2.90) (1.02,1.69)
3 rs476037 11:64369540 A/G 0.254 0.206 1.56 0.022 0.149 0.136 1.10 0.787 0.250 0.303 0.78 0.165 0.368 0.250 2.58 0.161 0.088 0.089 1.03 0.846
(1.07,2.28) (0.56,2.16) (0.55,1.11) (0.69,9.68) (0.74,1.43)
3 rs478607 11:64478063 G/A 0.241 0.268 0.85 0.359 0.279 0.184 1.72 0.080 0.196 0.166 1.48 0.085 0.211 0.225 0.82 0.766 0.167 0.144 1.27 0.077
(0.60,1.20) (0.94,3.15) (0.95,2.31) (0.23,2.98) (0.98,1.66)
4 rs12289836 11:65436888 A/G 0.621 0.622 0.94 0.711 0.660 0.631 1.07 0.810 0.693 0.746 0.80 0.237 0.790 0.725 1.22 0.766 0.645 0.683 0.85 0.109
(0.68,1.30] (0.62,1.85) (0.55,1.16)] (0.34,4.40) (0.69,1.04)
4 rs642803 11:65560620 T/C 0.454 0.458 1.00 0.975 0.500 0.474 1.26 0.364 0.413 0.421 0.92 0.624 0.500 0.368 0.71 0.620 0.448 0.474 0.93 0.467
(0.73,1.36] (0.77,2.07) (0.66,1.29) (0.18,2.75) (0.77,1.13)

aLD block as shown in Additional file 2: Figure S1 and S2, block 1: upstream, block 2: SLC22A11, block 3: SLC22A12, block 4: downstream. brs2078267, rs3825018 and rs476037 showed some evidence for a departure from Hardy-Weinberg equilibrium in the WP controls (P = 0.007, 0.001 and 0.006, respectively), rs2078267 in the EP/WP cases (P = 0.005) and rs476037 in the European Caucasian cases (P = 0.023). None were significant after correction for multiple testing (P <0.00042 (correction factor of 120; 10 datasets × 12 SNPs)). cBase position is according to Genome Reference Consortium human genome build 37 (GRCh37). dEffect/Other, alleles; all odds ratios (ORs) are calculated relevant to the effect allele defined as the allele in-phase with rs3825018 G allele according to 1,000 Genomes linkage-disequilibrium data. eOR, allelic OR (adjusted for sex); P, allelic asymptotic P-value. Genotyping success rate: rs475414: 97.55%; rs17299124: 94.35%; rs693591: 98.75%; rs17300741: 97.59%; rs2078267: 95.41%; rs3825018: 99.40%; rs475688: 98.75%; rs7932775: 92.40%; rs476037: 99.17%; rs478607: 98.01%; rs12289836: 97.82%; and rs642803: 97.73%. SNP, single nucleotide polymorphism; freq., frequency; Con, control.

Flynn et al.

Flynn et al. Arthritis Research & Therapy 2013 15:R220   doi:10.1186/ar4417

Open Data