BMC Bioinformatics

Table 4 Power simulation: power vs. selected nominal levels for all strategies

From: Novel genetic matching methods for handling population stratification in genome-wide association studies

			Power 1− β
Test		Units	Validation	α =0 . 01	α =0 . 001	α =0 . 0001
CAT	AT	–	–	0.665	0.450	0.271
CAT	RSU	Pairs	Cluster	0.881	0.782	0.662
CAT	RSU	Pairs	Vicinity	0.846	0.710	0.558
CAT	RSU	Groups	Cluster	0.809	0.705	0.594
CAT	RSU	Groups	Vicinity	0.833	0.729	0.607
CAT	RSU	Clusters	–	0.808	0.704	0.597
MCAT⁽²⁾	RSU	Pairs	Cluster	0.884	0.783	0.658
MCAT⁽²⁾	RSU	Pairs	Vicinity	0.823	0.705	0.549
MCAT⁽²⁾	RSU	Groups	Cluster	0.907	0.808	0.685
MCAT⁽²⁾	RSU	Groups	Vicinity	0.872	0.745	0.591
MCAT⁽²⁾	RSU	Clusters	–	0.894	0.782	0.641
MCAT⁽¹⁾	AT	Pairs	Cluster	0.862	0.733	0.579
MCAT⁽¹⁾	AT	Pairs	Vicinity	0.813	0.641	0.454
MCAT⁽¹⁾	AT	Groups	Cluster	0.903	0.797	0.671
MCAT⁽¹⁾	AT	Groups	Vicinity	0.878	0.751	0.603
MCAT⁽¹⁾	AT	Clusters	–	0.898	0.786	0.650
LRmds	LRT	7 PCs	–	0.871	0.741	0.588
LRmds	LRT	14 PCs	–	0.908	0.805	0.678
LRmds	LRT	28 PCs	–	0.901	0.798	0.664

11,010 SNPs, 1845 individuals, nominal error level α and power 1−β. 10,000 independent SNPs were used to obtain structure information. The abbreviations in the second column are: AT asymptotic test, RSU resampling simulation within units (99,995 cycles), LRT likelihood ratio test. Column N shows the number of individuals included and in brackets the number of pairs p, groups g and clusters c.

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