Table 2.
Gene | SNPa | Risk allele frequency (%) |
P-value for allele frequency difference |
Cases/controls | Unadjusted model | Adjusted modelb | ||
---|---|---|---|---|---|---|---|---|
Cases | Controls | Nominalb | Permutatedb | OR (95% CI) | OR (95% CI) | |||
GC | rs7041 | |||||||
TT | 18.2 | 19.0 | 0.350 | 0.993 | 1,369/1,283 | 1.00 | 1.00 | |
TC | 596/589 | 0.95 (0.83, 1.09) | 1.01 (0.88, 1.16) | |||||
CC | 72/75 | 0.90 (0.65, 1.25) | 0.98 (0.70, 1.37) | |||||
GC | rs2298849 | |||||||
AA | 37.0 | 36.9 | 0.974 | 0.999 | 887/950 | 1.00 | 1.00 | |
AG | 1,026/1,131 | 0.97 (0.86, 1.10) | 0.96 (0.85, 1.09) | |||||
GG | 308/322 | 1.02 (0.86, 1.23) | 1.01 (0.84, 1.21) | |||||
CYP2R1 | rs10766196 | |||||||
AA | 15.9 | 16.0 | 0.889 | 0.999 | 1,558/1,685 | 1.00 | 1.00 | |
AG | 590/642 | 0.99 (0.87, 1.13) | 1.05 (0.92, 1.20) | |||||
GG | 56/62 | 0.98 (0.68, 1.41) | 1.04 (0.72, 1.51) | |||||
CYP2R1 | rs10741657 | |||||||
GG | 28.5 | 26.7 | 0.059 | 0.503 | 1,155/1,259 | 1.00 | 1.00 | |
GA | 855/977 | 0.95 (0.85, 1.08) | 0.96 (0.85, 1.09) | |||||
AA | 203/149 | 1.49 (1.19, 1.86) | 1.48 (1.18, 1.85) | |||||
DHCR7 | rs4944957 | |||||||
GG | 49.2 | 46.8 | 0.022 | 0.225 | 588/669 | 1.00 | 1.00 | |
GA | 1,069/1,201 | 1.01 (0.88, 1.16) | 1.01 (0.88, 1.16) | |||||
AA | 554/518 | 1.22 (1.03, 1.43) | 1.19 (1.01, 1.40) | |||||
DHCR7 | rs12800438 | |||||||
AA | 61.4 | 58.3 | 0.002 | 0.028 | 327/402 | 1.00 | 1.00 | |
GA | 1,053/1,187 | 1.09 (0.92, 1.29) | 1.09 (0.92, 1.29) | |||||
GG | 829/796 | 1.28 (1.07, 1.53) | 1.23 (1.03, 1.47) | |||||
VDR | rs739837 | |||||||
AA | 42.3 | 42.1 | 0.837 | 0.999 | 726/756 | 1.00 | 1.00 | |
AG | 997/1,135 | 0.92 (0.80, 1.04) | 0.92 (0.81, 1.05) | |||||
GG | 399/394 | 1.05 (0.89, 1.25) | 1.05 (0.88, 1.25) | |||||
VDR | rs886441 | |||||||
AA | 39.5 | 39.3 | 0.825 | 0.999 | 735/713 | 1.00 | 1.00 | |
AG | 988/935 | 1.02 (0.89, 1.17) | 0.99 (0.86, 1.14) | |||||
GG | 309/296 | 1.01 (0.84, 1.22) | 0.97 (0.80, 1.18) | |||||
OCA2 | rs1800404 | |||||||
CC | 22.3 | 23.2 | 0.332 | 0.991 | 1,300/1,382 | 1.00 | 1.00 | |
TC | 785/811 | 1.03 (0.91, 1.16) | 1.10 (0.97, 1.25) | |||||
TT | 94/134 | 0.75 (0.57, 0.98) | 0.88 (0.66, 1.17) | |||||
SLC24A5 | rs1426654 | |||||||
GG | 22.2 | 22.6 | 0.668 | 0.999 | 1,344/1,429 | 1.00 | 1.00 | |
GA | 757/846 | 0.95 (0.84, 1.08) | 1.04 (0.91, 1.18) | |||||
AA | 114/118 | 1.03 (0.79, 1.34) | 1.31 (0.99, 1.74) | |||||
ASIP | rs6058017 | |||||||
AA | 66.2 | 62.9 | 0.001 | 0.013 | 253/309 | 1.00 | 1.00 | |
GA | 929/1,104 | 1.03 (0.85, 1.24) | 1.01 (0.83, 1.22) | |||||
GG | 941/908 | 1.27 (1.05, 1.53) | 1.18 (0.97, 1.44) | |||||
CYP24A1 | rs2762941 | |||||||
GG | 49.9 | 49.7 | 0.846 | 0.999 | 562/626 | 1.00 | 1.00 | |
GA | 1,076/1,140 | 1.05 (0.91, 1.21) | 1.03 (0.90, 1.19) | |||||
AA | 558/612 | 1.02 (0.86, 1.19) | 0.98 (0.83, 1.16) |
Order of genotype categories is as follows: top row = homozygous for the reference allele, middle row =heterozygous, bottom row = homozygous for the risk allele.
Adjusted for age in 1997, geographic region, and percent European ancestry.
Numbers of cases and controls do not sum to 2,432 and 2,232, respectively, due to missing genotype data.