A new association test based on disease allele selection for case–control genome-wide association studies

BMC Genomics

Table 4 Empirical type I error rates and powers for each method from 1000 replicates at significance level 0.05 when the sample sizes are 1000 for cases and controls and HWE holds for controls MAF equals 0.5

Λ ₁ Λ ₂	(1,1)	(1, 1.4) RM*	(1.1, 1.4)	(1.2, 1.4) AM*	(1.3, 1.4)	(1.4, 1.4) DM*	(1.5,1.4) ODM*	(0.9, 1.4) UDM*
ChiSQ	0.048	0.854	0.736	0.646	0.697	0.81	0.909	0.973
MAX3	0.045	0.868	0.778	0.704	0.732	0.818	0.909	0.962
GMS	0.044	0.857	0.768	0.692	0.724	0.81	0.908	0.966
CATT	0.044	0.795	0.787	0.761	0.724	0.705	0.701	0.815
MERT	0.044	0.789	0.782	0.763	0.729	0.718	0.722	0.806
GGM	0.045	0.865	0.795	0.735	0.746	0.816	0.901	0.962
New	0.041	0.84	0.773	0.714	0.747	0.829	0.919	0.952

*RM: Recessive Model; AM: Additive Model; DM: Dominant Model; ODM: Over-dominant Model; UDM: Under-dominant Model.

ISSN: 1471-2164