Table IV.
N | Pattern of Missing data 1 |
Simulated haplotype 1 frequency |
Simulated haplotype 2 frequency |
Power of test including only one haplotype as candidate2 |
Power of test including both haplotypes as candidates |
Empirical coverage of nominal 95% confidence region |
Geometric mean of estimated R1, T1 (both haplotypes included as candidate haplotypes in the model, 95% CI)3 |
||
---|---|---|---|---|---|---|---|---|---|
haplotype 1 | haplotype 2 | haplotype 1 | haplotype 2 | ||||||
400 | None | 0.141 | 0.141 | 0.152 | 0.500 | 0.537 | 0.956 | 1.20(1.20,1.21) | 1.35(1.35,1.36) |
20% g | 0.127 | 0.492 | 0.514 | 0.956 | 1.20(1.20,1.21) | 1.35(1.35,1.36) | |||
None | 0.0707 | 0.212 | 0.093 | 0.671 | 0.632 | 0.953 | 1.21(1.20,1.21) | 1.35(1.35,1.35) | |
20% g | 0.082 | 0.663 | 0.620 | 0.951 | 1.21(1.20,1.21) | 1.35(1.35,1.35) | |||
None | 0.212 | 0.0707 | 0.235 | 0.283 | 0.420 | 0.947 | 1.20(1.19,1.20) | 1.35(1.34,1.36) | |
20% g | 0.212 | 0.276 | 0.399 | 0.952 | 1.20(1.20,1.20) | 1.35(1.34,1.36) | |||
1000 | None | 0.141 | 0.141 | 0.292 | 0.868 | 0.915 | 0.948 | 1.20(1.20,1.20) | 1.35(1.35,1.35) |
20% g | 0.243 | 0.865 | 0.904 | 0.950 | 1.20(1.20,1.20) | 1.35(1.35,1.35) | |||
None | 0.0707 | 0.212 | 0.138 | 0.965 | 0.960 | 0.950 | 1.20(1.20,1.21) | 1.35(1.35,1.35) | |
20% g | 0.105 | 0.962 | 0.955 | 0.949 | 1.20(1.20,1.21) | 1.35(1.35,1.35) | |||
None | 0.212 | 0.0707 | 0.498 | 0.598 | 0.833 | 0.942 | 1.20(1.20,1.20) | 1.35(1.35,1.36) | |
20% g | 0.446 | 0.588 | 0.803 | 0.943 | 1.20(1.20,1.20) | 1.35(1.35,1.36) |
None: no missing; 20% g: 20% of SNP genotypes are missing randomly.
Only one risk haplotype is included as the candidate haplotype and the other is aggregated with the non-risk haplotypes.
The 95% CI is based on the empirical standard error calculated using the estimates from 5000 independent simulations.