Table 2.
Melanoma: summary results for the lead SNPs from the 9p21 and 22q13 loci for cutaneous melanoma. Joint odds ratios and confidence intervals were evaluated under a fixed-effects model for each SNP. Associated P values were estimated from the standard normal distribution.
| Allele reference | Risk allele frequency | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Marker | Chromosome | Sample | Base | Risk | Controls | Cases | OR per risk allele (95% CI) | P | Combined OR per risk allele (95% CI) | Combined P | Heterogeneity P |
| rs4636294 | 9 | Q-MEGA LEEDS2 |
G | A | 0.48 0.48 |
0.55 0.51 |
1.31 (1.19, 1.46) 1.11 (1.01, 1.22) |
1.7 × 10-7 0.029 |
1.21 (1.14, 1.28) | 3.7 × 10-8 | 4.0 × 10-3 |
| rs2218220 | 9 | Q-MEGA LEEDS2 |
T | C | 0.49 0.48 |
0.54 0.51 |
1.29 (1.17, 1.44) 1.13 (1.03, 1.25) |
5.7 × 10-7 0.011 |
1.21 (1.14, 1.27) | 4.8 × 10-8 | 0.02 |
| rs7023329 | 9 | Q-MEGA LEEDS2 |
G | A | 0.50 0.49 |
0.54 0.53 |
1.22 (1.11, 1.37) 1.17 (1.06, 1.29) |
1.2 × 10-4 0.001 |
1.20 (1.13, 1.26) | 2.7 × 10-7 | 0.48 |
| rs10757257 | 9 | Q-MEGA LEEDS1 |
A | G | 0.58 0.58 |
0.64 0.62 |
1.30 (1.17, 1.44) 1.16 (1.05, 1.28) |
7.7 × 10-7 0.003 |
1.23 (1.15, 1.30) | 3.4 × 10-8 | 0.06 |
| rs751173 | 9 | Q-MEGA LEEDS1 |
A | G | 0.46 0.46 |
0.51 0.48 |
1.28 (1.16, 1.42) 1.07 (0.97, 1.18) |
1.9 × 10-6 0.152 |
1.17 (1.11, 1.24) | 5.6 × 10-6 | 3.0 × 10-3 |
| rs1335510 | 9 | Q-MEGA LEEDS1 |
G | T | 0.58 0.57 |
0.63 0.60 |
1.26 (1.14, 1.40) 1.12 (1.02, 1.24) |
1.1 × 10-5 0.020 |
1.19 (1.12, 1.25) | 1.1 × 10-7 | 0.05 |
| rs1341866 | 9 | Q-MEGA LEEDS1 |
G | A | 0.58 0.58 |
0.63 0.60 |
1.24 (1.13, 1.39) 1.13 (1.02, 1.25) |
2.6 × 10-5 0.015 |
1.19 (1.12, 1.26) | 6.9 × 10-7 | 0.12 |
| rs10811629 | 9 | Q-MEGA LEEDS1 |
G | A | 0.57 0.56 |
0.61 0.62 |
1.19 (1.08, 1.32) 1.28 (1.06, 1.55) |
1.3 × 10-4 0.010 |
1.21 (1.12, 1.30) | 1.6 × 10-5 | 0.41 |
| rs2284063 | 22 | Q-MEGA LEEDS2 |
G | A | 0.65 0.63 |
0.66 0.69 |
1.06 (0.95, 1.19) 1.30 (1.18, 1.44) |
0.275 2.3 × 10-7 |
1.19 (1.12, 1.27) | 1.5 × 10-6 | 1.0 × 10-3 |
| rs6001027 | 22 | Q-MEGA LEEDS2 |
G | A | 0.65 0.64 |
0.66 0.69 |
1.06 (0.95, 1.19) 1.25 (1.13, 1.38) |
0.275 2.0 × 10-5 |
1.16 (1.09, 1.24) | 6.8 × 10-5 | 0.01 |
| rs132985 | 22 | Q-MEGA LEEDS1 |
T | C | 0.53 0.52 |
0.56 0.58 |
1.18 (1.05, 1.30) 1.26 (1.14, 1.38) |
2.7 × 10-3 2.8 × 10-6 |
1.23 (1.15, 1.30) | 2.6 × 10-7 | 0.31 |
| rs738322 | 22 | Q-MEGA LEEDS1 |
G | A | 0.53 0.52 |
0.55 0.57 |
1.18 (1.05, 1.30) 1.23 (1.12, 1.36) |
2.8 × 10-3 1.4 × 10-6 |
1.21 (1.14, 1.28) | 3.0 × 10-7 | 0.51 |