TABLE I.
The odds ratios (95% CIs) of 10 SNPs reported by Todd et al. [2007] in an initial scan (stage 1) and replication study (stage 2)
| Chr | SNP | Stage 1 OR | Stage 2 OR | GZW | MLE | ZP | UMVCUE |
|---|---|---|---|---|---|---|---|
| 12q24 | rs17696736 | 1.37 (1.27, 1.48) | 1.16 (1.09, 1.24) | 1.37 | 1.23 | 1.23 | 1.19 |
| 12q13 | rs2292239 | 1.30 (1.2, 1.41) | 1.28 (1.20, 1.37) | 1.29 | 1.29 | 1.29 | 1.27 |
| 16p13 | rs12708716 | 1.30 (1.19, 1.42) | 1.20 (1.13, 1.29) | 1.27 | 1.24 | 1.23 | 1.21 |
| 18p11 | rs2542151 | 1.33 (1.2, 1.48) | 1.29 (1.20, 1.38) | 1.27 | 1.30 | 1.30 | 1.29 |
| 4q27 | rs17388568 | 1.27 (1.15, 1.40) | 1.08 (1.01, 1.16) | 1.20 | 1.14 | 1.10 | 1.08 |
| 5q14 | rs7722135 | 1.27 (1.15, 1.40) | 1.09 (1.01, 1.17) | 1.11 | 1.15 | 1.10 | 1.08 |
| 2q11 | rs9653442 | 1.21 (1.11, 1.31) | 1.07 (1.00, 1.15) | 1.08 | 1.10 | 1.06 | 1.05 |
| 2q13 | rs6546909 | 1.31 (1.16, 1.47) | 1.02 (0.95, 1.10) | 1.09 | 1.12 | 1.04 | 1.02 |
| 10p11 | rs2666236 | 1.21 (1.11, 1.31) | 1.05 (0.98, 1.13) | 1.05 | 1.11 | 1.08 | 1.07 |
| 1q32 | rs12061474 | 1.33 (1.18, 1.54) | 1.00 (0.93, 1.08) | 1.08 | 1.10 | 1.04 | 1.00 |
Columns 1–4: Odds ratios are shown in the direction of increased risk. SNPs are ranked in order of stage 1 statistical significance. Columns 5–8: The one-stage correction of Ghosh et al. [2008] (GZW), the two-stage MLE, two-stage corrected MLE of Zhong and Prenctice [2008] (ZP), and our UMVCUE for the ith ranked stage 1 SNP's true odds ratio. MLE, maximum likelihood estimator; SNP, single-nucleotide polymorphism.