Table 1 |
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|
Association analysis in New Zealand case-control sample sets |
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|
SNPa |
Cases |
MAF |
Controls |
MAF |
Punadjusted |
Padjustedb |
OR (95% CI) |
HWE case |
HWE control |
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|
|
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|
rs1165196 |
TT |
CT |
CC |
C |
TT |
CT |
CC |
C |
|||||
|
Caucasian |
167 (0.400) |
201 (0.482) |
49 (0.118) |
0.359 |
389 (0.318) |
590 (0.482) |
246 (0.200) |
0.442 |
1.0 × 10-4 |
5.5 × 10-5 |
0.71 (0.60 to 0.83) |
0.33 |
0.41 |
|
EP/N |
130 (0.570) |
86 (0.377) |
12 (0.053) |
0.241 |
98 (0.516) |
77 (0.405) |
15 (0.079) |
0.282 |
0.19 |
0.26 |
0.81 (0.60 to 1.11) |
0.65 |
0.98 |
|
EP/Z |
16 (0.364) |
22 (0.500) |
6 (0.136) |
0.386 |
53 (0.358) |
64 (0.432) |
31 (0.209) |
0.426 |
0.51 |
0.88 |
0.85 (0.52 to 1.38) |
0.72 |
0.16 |
|
WP |
138 (0.556) |
99 (0.399) |
11 (0.044) |
0.244 |
69 (0.496) |
54 (0.388) |
16 (0.115) |
0.309 |
0.05 |
0.06 |
0.72 (0.52 to 1.00) |
0.20 |
0.28 |
|
EP/WP |
10 (0.667) |
5 (0.333) |
0 (0.000) |
0.167 |
6 (0.316) |
10 (0.526) |
3 (0.158) |
0.421 |
0.02 |
0.07 |
0.28 (0.09 to 0.87) |
0.33 |
0.73 |
|
Combinedc |
5.7 × 10-7 |
0.72 (0.64 to 0.82) |
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|
rs1183201d |
TT |
TA |
AA |
A |
TT |
TA |
AA |
A |
|||||
|
Caucasian |
158 (0.384) |
205 (0.499) |
48 (0.117) |
0.366 |
356 (0.291) |
608 (0.496) |
261 (0.213) |
0.461 |
2.0 × 10-6 |
3.0 × 10-6 |
0.67 (0.57 to 0.79) |
0.13 |
0.89 |
|
EP/N |
130 (0.570) |
86 (0.377) |
12 (0.053) |
0.241 |
96 (0.505) |
78 (0.411) |
16 (0.084) |
0.289 |
0.11 |
0.14 |
0.78 (0.57 to 1.06) |
0.65 |
0.98 |
|
EP/Z |
15 (0.349) |
21 (0.488) |
7 (0.163) |
0.407 |
52 (0.349) |
61 (0.409) |
36 (0.242) |
0.446 |
0.49 |
0.95 |
0.85 (0.52 to 1.39) |
0.94 |
0.04 |
|
WP |
132 (0.543) |
101 (0.416) |
10 (0.041) |
0.249 |
68 (0.479) |
57 (0.401) |
17 (0.120) |
0.320 |
0.03 |
0.03 |
0.70 (0.51 to 0.97) |
0.08 |
0.35 |
|
EP/WP |
9 (0.600) |
6 (0.400) |
0 (0.000) |
0.200 |
7 (0.350) |
10 (0.500) |
3 (0.150) |
0.400 |
0.07 |
0.11 |
0.38 (0.13 to 1.12) |
0.25 |
0.99 |
|
Combinedc |
3.0 × 10-8 |
0.70 (0.62 to 0.79) |
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|
rs9358890 |
AA |
AG |
GG |
G |
AA |
AG |
GG |
G |
|||||
|
Caucasian |
366 (0.884) |
47 (0.114) |
1 (0.002) |
0.059 |
1114 (0.912) |
104 (0.085) |
4 (0.003) |
0.046 |
0.12 |
0.17 |
1.31 (0.93 to 1.85) |
0.69 |
0.35 |
|
EP/N |
97 (0.418) |
99 (0.427) |
36 (0.155) |
0.369 |
80 (0.419) |
78 (0.408) |
33 (0.173) |
0.377 |
0.80 |
0.71 |
0.96 (0.73 to 1.28) |
0.21 |
0.07 |
|
EP/Z |
34 (0.753) |
11 (0.244) |
0 (0.000) |
0.122 |
129 (0.827) |
26 (0.167) |
1 (0.006) |
0.090 |
0.44 |
0.42 |
1.41 (0.67 to 2.96) |
0.35 |
0.80 |
|
WP |
110 (0.440) |
101 (0.404) |
39 (0.156) |
0.358 |
73 (0.507) |
61 (0.424) |
10 (0.069) |
0.281 |
0.03 |
0.06 |
1.43 (1.04 to 1.95) |
0.06 |
0.57 |
|
EP/WP |
8 (0.533) |
7 (0.467) |
0 (0.000) |
0.233 |
12 (0.571) |
7 (0.333) |
2 (0.095) |
0.262 |
0.78 |
0.87 |
0.86 (0.29 to 2.55) |
0.24 |
0.53 |
|
Combinedc |
0.05 |
1.19 (1.00 to 1.41) |
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|
rs3799344 |
CC |
CT |
TT |
T |
CC |
CT |
TT |
T |
|||||
|
Caucasian |
165 (0.404) |
193 (0.473) |
50 (0.123) |
0.359 |
379 (0.309) |
592 (0.483) |
255 (0.207) |
0.450 |
5.9 × 10-6 |
2.8 × 10-5 |
0.69 (0.58 to 0.81) |
0.58 |
0.38 |
|
EP/N |
128 (0.561) |
88 (0.386) |
12 (0.053) |
0.246 |
97 (0.524) |
73 (0.395) |
15 (0.081) |
0.278 |
0.46 |
0.37 |
0.84 (0.62 to 1.15) |
0.53 |
0.80 |
|
EP/Z |
17 (0.378) |
22 (0.489) |
6 (0.133) |
0.378 |
53 (0.353) |
64 (0.427) |
33 (0.220) |
0.433 |
0.35 |
0.72 |
0.79 (0.49 to 1.29) |
0.79 |
0.49 |
|
WP |
136 (0.551) |
98 (0.397) |
13 (0.053) |
0.251 |
64 (0.457) |
59 (0.421) |
17 (0.121) |
0.332 |
0.02 |
0.02 |
0.67 (0.49 to 0.93) |
0.39 |
0.55 |
|
EP/WP |
10 (0.667) |
5 (0.333) |
0 (0.000) |
0.167 |
7 (0.350) |
10 (0.500) |
3 (0.150) |
0.400 |
0.04 |
0.08 |
0.30 (0.10 to 0.95) |
0.44 |
0.85 |
|
Combinedc |
7.4 × 10-8 |
0.71 (0.62 to 0.80) |
|||||||||||
|
rs12664474 |
AA |
AG |
GG |
G |
AA |
AG |
GG |
G |
|||||
|
Caucasian |
264 (0.632) |
134 (0.321) |
20 (0.048) |
0.208 |
867 (0.707) |
321 (0.262) |
38 (0.031) |
0.162 |
0.01 |
1.2 × 10-3 |
1.36 (1.12 to 1.66) |
0.57 |
0.22 |
|
EP/N |
90 (0.383) |
104 (0.443) |
41 (0.174) |
0.396 |
74 (0.392) |
77 (0.407) |
38 (0.201) |
0.405 |
0.79 |
0.17 |
0.96 (0.73 to 1.27) |
0.25 |
0.03 |
|
EP/Z |
25 (0.543) |
18 (0.391) |
3 (0.065) |
0.261 |
107 (0.704) |
39 (0.257) |
6 (0.039) |
0.168 |
0.05 |
0.13 |
1.75 (1.00 to 3.05) |
0.92 |
0.32 |
|
WP |
102 (0.411) |
106 (0.427) |
40 (0.161) |
0.375 |
63 (0.444) |
67 (0.472) |
12 (0.085) |
0.320 |
0.13 |
0.10 |
1.27 (0.93 to 1.73) |
0.16 |
0.32 |
|
EP/WP |
7 (0.467) |
6 (0.400) |
2 (0.133) |
0.333 |
12 (0.571) |
7 (0.333) |
2 (0.095) |
0.262 |
0.51 |
0.38 |
1.41 (0.51 to 3.92) |
0.70 |
0.53 |
|
Combinedc |
2.0 × 10-3 |
1.25 (1.09 to 1.43) |
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|
|
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|
CI, confidence interval; HWE, MAF, OR, odds ratio. aGenotyping success rate: rs1165196 Caucasian, Eastern Polynesian (EP), Western Polynesian (WP) and EP/WP - cases 99.0%, 95.8%, 98.8% and 100%, respectively, controls 99.8%, 96.8%, 96.5% and 90.5%, respectively; rs1183201 Caucasian, EP, WP and EP/WP - cases 97.6%, 95.4%, 96.8% and 100%, respectively, controls 99.7%, 97.1%, 98.6% and 95.2%, respectively; rs9358890 Caucasian, EP, WP and EP/WP - cases 98.3%, 97.5%, 99.6% and 100%, respectively, controls 99.2%, 99.4%, 100% and 90.5%, respectively; rs3799344 Caucasian, EP, WP, EP/WP - cases 96.9%, 96.1%, 98.4% and 100%, respectively, controls 99.8%, 96.0%, 97.2% and 95.2%, respectively; rs12664474 Caucasian, EP, WP, EP/WP - cases 99.3%, 98.9%, 98.8% and 100%, respectively, controls 99.8%, 97.7%, 98.6% and 100%, respectively. bAdjusted for sex. cMeta-analysis by the Mantel-Haenszel method. Breslow-Day test for heterogeneity: rs1165196, P = 0.45; rs1183201, P = 0.75; rs9358890, P = 0.77; rs3799344, P = 0.58; rs12664474, P = 0.97. dPopulation attributable risk (the reduction in gout incidence if the risk variant was absent) for positivity of the risk (T) allele of rs1183201 is 38.2% for Caucasian, 21.4% for EP/N, 27.3% for EP/N and 41.3% for WP. |
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|
Hollis-Moffatt et al. Arthritis Research & Therapy 2012 14:R92 doi:10.1186/ar3816 |
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