Table 3.

The Estimated Type I Error Rate Under the Null Hypothesis of No Association by Using MS Program

SS	MS Program			LD-based Programs
				r 2 = 0.9			r 2 = 0.5			r 2 = 0.0
	maxTa	Entropyb	SNPc	maxT	Entropy	SNP	maxT	Entropy	SNP	maxT	Entropy	SNP
400	0.05	0.06	0.03	0.05	0.06	0.027	0.06	0.06	0.06	0.04	0.04	0.04
800	0.05	0.05	0.02	0.04	0.06	0.019	0.05	0.06	0.04	0.06	0.05	0.05

^aSS, sample size.

^bData were obtained using the maximum test statistic method.

^cData were obtained using the entropy-based method.

^dData were obtained using the single-SNP–based method.