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. Author manuscript; available in PMC: 2011 Apr 18.
Published in final edited form as: Prostate. 2010 Mar 1;70(4):425–432. doi: 10.1002/pros.21076

Table II. Association of SNPs with prostate cancer risk in a Chinese population.

Chr SNP Locus Non-risk
allele
(N)		 Risk
allele
(R)a 		Controls
n=155		 HapMapd
N=302		 Prostate Cancer Cases
n=288
Risk allele
frequency		 Genotypesb HWE
Pc 		Risk allele
frequency		 Unadjusted Allelic ORe Genotypesb Age-adjusted ORg
NN NR RR Risk allele
frequency		 OR 95% CI P Pf NN NR RR Model h OR 95% CI P
Prostate cancer risk loci identified in populations of European descent
2 rs721048 2p15 G A 0.033 142 10 0 0.68 0.033 0.039 1.18 0.56 - 2.50 0.67 0.60 263 20 1 D 0.94 0.41 - 2.17 0.89
3 rs2660753 3p12 C T 0.314 70 70 13 0.44 0.323 0.310 0.99 0.74 - 1.32 0.92 0.64 142 105 35 D 0.82 0.54 - 1.23 0.34
6 rs9364554 6q25 C T 0.310 72 63 15 0.82 0.344 0.308 0.99 0.74 - 1.34 0.95 0.19 138 117 29 D 0.96 0.64 - 1.45 0.84
7 rs10486567 7p15 T C 0.128 116 35 2 0.72 0.126 0.181 1.47 1.00 - 2.17 0.05 0.009 192 73 14 D 1.53 0.97 - 2.43 0.07
7 rs6465657 7q21 T C 0.860 5 32 112 0.17 0.875 0.850 0.90 0.61 - 1.33 0.59 0.13 7 74 203 R 0.83 0.52 - 1.34 0.45
8 rs16901979 8q24 (Region 2) C A 0.235 85 52 8 0.99 0.264 0.366 1.93 1.39 - 2.70 1.0×10-4 2.0×10-4 110 139 34 D 2.03 1.33 - 3.10 0.001
8 rs6983267 8q24 (Region 3) T G 0.428 51 72 29 0.69 0.434 0.457 1.12 0.85 - 1.48 0.41 0.42 86 134 62 D 1.11 0.72 - 1.72 0.64
8 rs1447295 8q24 (Region 1) C A 0.156 110 35 6 0.15 0.130 0.222 1.52 1.06 - 2.18 0.02 3.7×10-5 173 96 15 D 1.81 1.16 - 2.83 0.009
9 rs1571801 9q33 G T 0.036 142 11 0 0.64 0.054 0.063 1.80 0.90 - 3.62 0.10 0.55 246 33 1 D 1.75 0.84 - 3.63 0.13
10 rs10993994 10q11 C T 0.434 43 77 24 0.29 0.443 0.504 1.32 0.99 - 1.75 0.06 0.04 75 130 77 D 1.12 0.70 - 1.77 0.64
10 rs4962416 10q26 A G 0.007 146 2 0 0.93 0.007 0.012 1.85 0.38 - 9.03 0.45 0.39 276 7 0 D 2.02 0.41 - 9.92 0.38
11 rs10896449 11q13 A G 0.086 122 21 2 0.33 0.084 0.111 1.35 0.82 - 2.23 0.24 0.12 221 63 0 D 1.53 0.89 - 2.64 0.13
17 rs11649743 17q12 (Region 2) A G 0.660 19 64 67 0.55 0.654 0.700 1.22 0.91 - 1.64 0.19 0.064 28 110 143 R 1.35 0.89 - 2.05 0.15
17 rs4430796 17q12 (Region 1) C T 0.720 11 63 78 0.72 0.724 0.740 1.14 0.83 - 1.56 0.43 0.42 17 110 155 R 1.18 0.78 - 1.78 0.43
17 rs1859962 17q24.3 T G 0.391 55 75 22 0.66 0.405 0.457 1.31 0.98 - 1.74 0.07 0.072 83 136 59 D 1.31 0.85 - 2.03 0.22
19 rs2735839 19q13 A G 0.580 24 79 47 0.34 0.596 0.610 1.14 0.85 - 1.52 0.38 0.69 46 131 107 R 1.15 0.66 - 2.00 0.63
X rs5945619 Xp11 A G 0.059 144i 9i 0.053 0.086 1.51 0.68 - 3.33 0.31 0.16 255i 24i 1.82 0.82 - 4.06 0.14
Additional SNPs genotyped at 8q24j
8 rs979200 8q24 T C 0.510 36 76 39 0.93 0.498 0.459 0.82 0.62 - 1.08 0.16 0.18 84 134 61 R 0.77 0.47 - 1.25 0.29
8 rs1016343 8q24 (Region 2) C T 0.330 66 65 16 1.00 0.341 0.453 1.76 1.29 - 2.41 3.7×10-4 1.0×10-4 76 159 49 D 2.07 1.35 - 3.20 9.4×10-4
8 rs13254738 8q24 (Region 2) A C 0.697 11 70 71 0.26 0.303 0.801 1.82 1.32 - 2.56 0.001 5.9×10-4 9 92 176 R 2.05 1.34 - 3.13 9.4×10-4
8 rs6983561 8q24 (Region 2) A C 0.245 80 53 8 0.84 0.245 0.368 1.85 1.33 - 2.59 2.9×10-4 3.1×10-4 109 141 34 D 1.92 1.25 - 2.93 0.003
8 rs7837328 8q24 (Region 3) G A 0.372 59 64 22 0.50 0.381 0.417 1.20 0.90 - 1.59 0.22 0.20 99 133 52 D 1.18 0.77 - 1.81 0.45
8 rs7000448 8q24 (Region 3) C T 0.307 75 55 18 0.12 0.307 0.360 1.26 0.93 - 1.70 0.13 0.12 114 133 35 D 1.43 0.94 - 2.16 0.09
8 rs4242382 8q24 (Region 1) G A 0.168 108 37 7 0.11 0.140 0.241 1.56 1.09 - 2.22 0.01 1.0×10-5 163 105 16 D 1.77 1.15 - 2.75 0.01
8 rs10090154 8q24 (Region 1) C T 0.142 112 30 6 0.04 0.142 0.223 1.70 1.17 - 2.48 0.006 0.004 170 98 14 D 2.07 1.31 - 3.28 0.0019
a

Risk alleles are defined based on European populations

b

NN=homozygous non-risk alleles; NR=heterozygous; RR=homozygous risk alleles

c

HWE=Hardy-Weinberg Equilibrium

d

Chinese subjects from the HapMap Project: CHB (N=162) & CHD (N=140)

e

Based on analysis of Shanghai prostate cancer cases versus Shanghai controls; OR=Odds Ratio; CI=confidence interval

f

Based on analysis of Shanghai prostate cancer cases versus all controls (Shanghai controls, CHB and CHD; N=457)

g

Based on logistic regression analysis of Shanghai prostate cancer cases versus Shanghai controls adjusting for age (4 categories: <65, 65-69, 70-74, and ≥75)

h

D=dominant mode of inheritance; R=recessive mode of inheritance

i

Haploid

j

Additional SNPs were selected to be genotyped from previous fine mapping studies of 8q24 to provide better coverage of this region. These include two additional SNPs at Region 1, three additional SNPs at region 2, two additional SNPs at Region 3, and 1 SNP centromeric to the risk regions.