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

BMC Bioinformatics

Table 2 Power comparison for MAF = 0.15 (K = 0.1, α = 0.05, m = 5 × 10⁵)

	π	γ	ALLEJ	CATAJ	MERTJ	MAX3J
Recessive Model	0.5	0.0001	0.070	0.058	0.385	0.759
r = s = 5000		0.0002	0.076	0.064	0.420	0.798
λ₁ = 1, λ₂ = 2	0.4	0.0001	0.049	0.042	0.273	0.583
		0.0002	0.058	0.048	0.317	0.646
	0.3	0.0001	0.029	0.025	0.155	0.346
		0.0002	0.036	0.031	0.193	0.423
Additive Model	0.5	0.0001	0.601	0.613	0.440	0.555
r = s = 2000		0.0002	0.643	0.655	0.477	0.599
λ₁ = 1.4, λ₂ = 1.8	0.4	0.0001	0.450	0.460	0.317	0.406
		0.0002	0.507	0.517	0.364	0.451
	0.3	0.0001	0.271	0.277	0.183	0.226
		0.0002	0.326	0.334	0.226	0.281
Dominant Model	0.5	0.0001	0.679	0.711	0.356	0.726
r = s = 2000		0.0002	0.720	0.752	0.388	0.768
λ₁ = λ₂ = 1.5	0.4	0.0001	0.520	0.551	0.254	0.552
		0.0002	0.579	0.611	0.293	0.621
	0.3	0.0001	0.322	0.345	0.146	0.339
		0.0002	0.383	0.408	0.181	0.400

ISSN: 1471-2105