Table 4.
Comparison of Different Analysis Strategies under the Alternative Hypothesis, with 5% Missing Data
|
Average Peak LOD |
Power for α=.05 |
|||||
| Analysis Strategy | Ignore LD | Model LD | Independent SNPs | Ignore LD | Model LD | Independent SNPs |
| No parents genotyped: | ||||||
| 2 sibs per family | 8.280 | .950 | .796 | .094 | .268 | .217 |
| 3 sibs per family | 14.126 | 1.673 | 1.234 | .128 | .555 | .426 |
| 4 sibs per family | 12.857 | 2.885 | 1.923 | .192 | .880 | .700 |
| One parent genotyped: | ||||||
| 2 sibs per family | 3.234 | .869 | .723 | .084 | .192 | .168 |
| 3 sibs per family | 4.501 | 1.535 | 1.196 | .162 | .511 | .394 |
| 4 sibs per family | 4.618 | 2.661 | 1.977 | .454 | .804 | .685 |
| Two parents genotyped: | ||||||
| 2 sibs per family | .923 | .852 | .735 | .166 | .170 | .163 |
| 3 sibs per family | 1.562 | 1.476 | 1.252 | .445 | .452 | .387 |
| 4 sibs per family | 2.548 | 2.470 | 2.060 | .765 | .775 | .696 |