Table 1.
Type I errors of test of parent-of-origin effect in nuclear families with different family sizes and different missing mechanisms, using different haplotyple block length, at α = 0.05.
Figure 1.
Power of detecting parent-of-origin effect in nuclear families using the testing locus only.
Three causal minor allele frequencies (MAFs) are considered and are shown is three separate pannels. Four family sizes are considered and the numbers of siblings 1–4 are indicated by different colors red, green, brown, and blue. Solid lines are for no missing (complete) parental genotypes, and dotted lines are for one parent's genotype missing.
Figure 2.
Power of detecting parent-of-origin effect using different haplotype block lengths for different family sizes.
The length of haplotype blocks 1–5 are indicated by different colors blue, red, green, purple, and brown. They are compared with the power using the variance components (vc) method, shown by grey color.
Figure 3.
Power of detecting parent-of-origin effect with and without missing genotypes.
Three scenarios are considered: no missing, (i) missing one parent's genotype in each family, (ii) for 10% random genotype missing, shown in blue, red, and green, respectively. Results connected by solid lines are obtained by the method using haplotypes, and the results connected by dotted lines are obtained by the method using the testing locus only.
Table 2.
Power of detecting parent-of-origin effect using 1200 individuals with different family structures and with/without missing phenotypes.
Table 3.
Summary of GOLDN Family Data.
Table 4.
Parent-of-origin effect estimates (p-values) in genes FABP2 and MTP on chromosome 4.
Table 5.
Haplotype frequency estimates from Haploview and our method.