Table 2.

Power Comparison of Epstein’s ASP Method, RV-PDT, FBAT, and RV-GDT when Founders Are Missing Different Proportions of Genotype Data

Method	Discordant Sib-Pair			Affected Sib-Pair			Extended Pedigree			Mixed Family Types
	0%a	25%a	50%a	0%	25%	50%	0%	25%	50%	0%	25%	50%
Epstein’s ASPb	–	–	–	0.23	0.23	0.23	–	–	–	0.10	0.10	0.10
FBAT	0.46	0.40	0.35	0.80	0.71	0.54	0.42	0.38	0.34	0.61	0.52	0.38
RV-PDT	0.51	0.45	0.42	0.79	0.70	0.52	0.48	0.45	0.41	0.63	0.55	0.43
RV-GDT	0.53	0.48	0.45	0.81	0.75	0.62	0.64	0.62	0.60	0.66	0.62	0.56

Genetic variant data were generated for 1,000 families of each pedigree structure shown in Figure 1 and mixed pedigree structures with the use of ExAC non-Finnish European variant information. Genotype data were generated for 17,987 autosomal genes across the genome when 75% of the rare nonsense, missense, and splice-site variants were randomly selected to be causal with an OR of 2.5, and power was evaluated as the proportion of genes with a p value < 0.05.

^aProbability that each founder is missing all genotype data.

^bPower was evaluated under the assumption that the exact IBD sharing between affected sib-pairs is known. Unknown IBD sharing and non-simulated data would reduce the power.