Table 4.
Estimated Genetic Variance on the Observed and Liability Scale Explained by All SNPs for Bipolar Disorder in WTCCC Data
| Thresholda | No. SNPb | Estimatec(SE) | LR | Adjustedd(SE) | Transformede(SE) |
|---|---|---|---|---|---|
| MAF > 0.01 | |||||
| 200 | 321605 | 0.71 (0.07) | 107.76 | 0.81 (0.08) | 0.41 (0.04) |
| 20 | 291724 | 0.68 (0.07) | 100.48 | 0.78 (0.08) | 0.40 (0.04) |
| 7 | 245127 | 0.65 (0.07) | 94.69 | 0.76 (0.08) | 0.38 (0.04) |
| 4 | 187597 | 0.62 (0.07) | 92.21 | 0.76 (0.08) | 0.38 (0.04) |
| MAF > 0.05 | |||||
| 200 | 292969 | 0.68 (0.07) | 110.45 | 0.77 (0.08) | 0.39 (0.04) |
| 20 | 264151 | 0.65 (0.07) | 103.46 | 0.75 (0.08) | 0.38 (0.04) |
| 7 | 221947 | 0.62 (0.07) | 97.64 | 0.72 (0.08) | 0.37 (0.04) |
| 4 | 170143 | 0.60 (0.06) | 95.47 | 0.73 (0.08) | 0.37 (0.04) |
a
Excluding SNPs with more than the listed number of missing genotypes.
b
After filtering on the basis of SNP missing rate.
c
Estimate of genetic variance proportional to the total phenotypic variance on the observed scale.
d
Estimate adjusted for reduced number of SNPs.
e
Transformed genetic variance proportional to the total phenotypic variance on the liability scale under the assumption that the population prevalence is 0.5%.