Table 2. The effect of adding fully genotyped sib-pairs (eg, linkage information) to analysis of type-I error rate (α=0.05 significance level) of PSEUDOMARKER recessive LD-given linkage test, when the dataset consisted solely of triads and controls.
| # of sib-pairs | 200 triads and 200 controls | 500 triads and 500 controls | 600 triads and 600 controls |
|---|---|---|---|
| 0 | 0.09 | 0.10 | 0.10 |
| 1 | 0.09 | 0.09 | 0.10 |
| 5 | 0.06 | 0.06 | 0.09 |
| 10 | 0.05 | 0.05 | 0.05 |
| 15 | 0.06 | 0.04 | 0.05 |
| 20 | 0.06 | 0.06 | 0.05 |
| 25 | 0.05 | 0.06 | 0.05 |
| 30 | 0.04 | 0.05 | 0.05 |
| 50 | 0.05 | 0.06 | 0.06 |
| 100 | 0.04 | 0.05 | 0.04 |
The true (ie, generating) model of inheritance was MRec, with complete linkage between disease and SNP marker (minor allele frequency 0.1). Results are based on 1000 replicates.