Table 3.

Correlation between true^* and estimated SNP effects under four simulation scenarios using noise data analyzed with threshold models either ignoring (M2) or contemplating (M3) misclassification

Model	5% and 0%		7% and 3%
	Moderate**	Extreme	Moderate	Extreme
M2	0.894	0.777	0.807	0.675
M3	0.969	0.911	0.907	0.892

Notes:

^*True effects were calculated based on analysis of the true data (M1).

^**Moderate effects for influential SNPs. M1: true data analyzed with a standard model. M2: noisy data analyzed with threshold model ignoring misclassification. M3: noisy data analyzed with threshold model contemplating misclassification (proposed method).

Abbreviation: SNP, single nucleotide polymorphism.