Table 3.

Penetrence, relative risk and odds ratio of the two-locus combinations.

Two-locus combination		SNP1 and SNP2	SNP1 and SNP3
Penetrance	Unadjusted	Pen() = 0.48F,	Pen() = 0.40F;
		Pen() = 1.78F.	Pen() = 1.02F;
			Pen() = 2.60F.
	Adjusted	Pen() = 0.51F;	Pen() = 0.44F;
		Pen() = 1.73F.	Pen() = 1.03F;
			Pen() = 2.43F.
R and 95% CI	Unadjusted	3.70, (2.85, 4.85)	2.55, (2.10, 3.15)
	Adjusted	3.40, (2.40, 4.60)	2.35, (1.85, 2.95)
ORH and 95% CI	Unadjusted	3.70, (2.85, 4.85)	3.37, (2.66, 4.34)
	Adjusted	3.40, (2.40, 4.60)	3.05, (2.27, 4.01)
ORL and 95% CI	Unadjusted	0.27, (0.21,0.35)	0.31, (0.23, 0.40)
	Adjusted	0.29, (0.22, 0.42)	0.34, (0.25, 0.47)
SS and 95% CI	Unadjusted	680, (480, 1040)	680, (460, 1040)
	Adjusted	800, (500, 1500)	810, (520, 1520)

Note: There were two genotype combinations for SNP1 and SNP2, = {TTAA, TCAA, CCAA, TTAG, TTGG} and = {TCAG, CCAG, TCGG, CCGG}, three genotype combinations for SNP1 and SNP3, = {TTCC}, = {TCCC, CCCC, TTCA, TTAA} and = {TCCA, CCCA, TCAA, CCAA}. Pen(G) denotes the penetrance of G. R: relative risk. For SNP 1 and SNP2, R = pen()/pen() = α/β; for SNP1 and SNP3, R = pen()/pen() = pen()/pen() = θ. OR^H (OR^L): the odds ratio of the high-risk (low-risk) genotype group. SS: the sample size required to reach 80% power. Adjusted (Unadjusted): based on the penetrance estimated using the method proposed in this article (the traditional method). F is the prevalence and F = 10^-4.