Robust joint analysis allowing for model uncertainty in two-stage genetic association studies

BMC Bioinformatics

Table 4 Power comparison for MAF = 0.35 (K = 0.1, α = 0.05, m = 5 × 10⁵)

	π	γ	ALLEJ	CATAJ	MERTJ	MAX3J
Recessive Model	0.5	0.0001	0.420	0.384	0.536	0.824
r = s = 4000		0.0002	0.456	0.418	0.578	0.860
λ₁ = 1, λ₂ = 1.5	0.4	0.0001	0.302	0.274	0.393	0.657
		0.0002	0.348	0.317	0.447	0.717
	0.3	0.0001	0.175	0.158	0.231	0.436
		0.0002	0.216	0.196	0.282	0.492
Additive Model	0.5	0.0001	0.891	0.900	0.882	0.864
r = s = 2000		0.0002	0.916	0.925	0.909	0.895
λ₁ = 1.4, λ₂ = 1.8	0.4	0.0001	0.760	0.773	0.747	0.715
		0.0002	0.809	0.821	0.797	0.767
	0.3	0.0001	0.537	0.551	0.522	0.481
		0.0002	0.604	0.618	0.590	0.548
Dominant Model	0.5	0.0001	0.558	0.607	0.464	0.758
r = s = 2000		0.0002	0.600	0.649	0.502	0.806
λ₁ = λ₂ = 1.5	0.4	0.0001	0.413	0.455	0.337	0.599
		0.0002	0.468	0.512	0.385	0.660
	0.3	0.0001	0.246	0.274	0.197	0.374
		0.0002	0.298	0.330	0.242	0.437

ISSN: 1471-2105