. Author manuscript; available in PMC: 2010 Dec 1.

Published in final edited form as: Genet Epidemiol. 2009 Dec;33(8):717–728. doi: 10.1002/gepi.20424

Table III.

Type I error rates for marker-secondary trait association; common disease (10% prevalence)

		OR_DG=1			OR_DG=1.3			OR_DG=1.7
		β_DX=0	β_DX=ln(2)/2	β_DX=ln2	β_DX=0	β_DX=ln(2)/2	β_DX=ln2	β_DX=0	β_DX=ln(2)/2	β_DX=ln2
		OR_DX=1	OR_DX=1.4	OR_DX=2	OR_DX=1	OR_DX=1.4	OR_DX=2	OR_DX=1	OR_DX=1.4	OR_DX=2
1. Full cohort	α=0.05	0.052	0.051	0.052	0.052	0.045	0.049	0.051	0.051	0.047
	α=0.01	0.010	0.012	0.010	0.010	0.010	0.011	0.009	0.012	0.008
	α=0.001	0.002	0.002	0.001	0.001	0.001	0.001	0.001	0.001	0.002
2. Unadjusted	α=0.05	0.051	0.052	0.047	0.055	0.059	0.077	0.052	0.084	0.148
	α=0.01	0.009	0.008	0.009	0.010	0.012	0.025	0.013	0.021	0.046
	α=0.001	0.001	0.001	0.000	0.001	0.001	0.003	0.001	0.003	0.009
3. Adjusted	α=0.05	0.050	0.050	0.050	0.056	0.056	0.065	0.050	0.081	0.170
	α=0.01	0.010	0.009	0.010	0.010	0.011	0.015	0.012	0.020	0.058
	α=0.001	0.001	0.000	0.001	0.001	0.001	0.003	0.001	0.003	0.009
4. Controls only	α=0.05	0.048	0.055	0.053	0.048	0.051	0.064	0.050	0.071	0.136
	α=0.01	0.011	0.013	0.008	0.011	0.010	0.013	0.009	0.015	0.043
	α=0.001	0.001	0.001	0.001	0.001	0.000	0.002	0.001	0.002	0.007
5. Cases only	α=0.05	0.045	0.050	0.049	0.049	0.051	0.051	0.054	0.062	0.084
	α=0.01	0.008	0.011	0.010	0.011	0.010	0.011	0.011	0.016	0.020
	α=0.001	0.002	0.001	0.001	0.001	0.001	0.001	0.002	0.001	0.003
6. Joint analysis	α=0.05	0.046	0.053	0.041	0.050	0.052	0.051	0.053	0.064	0.116
	α=0.01	0.010	0.010	0.006	0.010	0.008	0.010	0.011	0.014	0.033
	α=0.001	0.001	0.001	0.000	0.001	0.000	0.002	0.001	0.002	0.004
7. IPW regression	α=0.05	0.047	0.051	0.052	0.053	0.052	0.048	0.051	0.051	0.050
	α=0.01	0.009	0.011	0.010	0.012	0.012	0.011	0.012	0.010	0.009
	α=0.001	0.002	0.001	0.001	0.001	0.001	0.002	0.001	0.001	0.002