Table 4. Type 1 error in ERF data analysis.

		Not corrected			Constant corrected			VIFGC corrected*			PGC corrected
Model	Frequency	λmedian	λregress	E	λmedian	λregress	E	λmedian	λregress	E	λmedian	λregress	E
Recessive	all	1.201	1.200	0.074	1.000	1.000	0.050	1.001	1.000	0.050	1.000	1.000	0.050
	[0.05,0.25)	1.105	1.109	0.063	0.921	0.924	0.042	0.993	0.997	0.050	0.998	1.002	0.051
	[0.25,0.5)	1.188	1.180	0.072	0.989	0.983	0.048	1.005	0.999	0.050	0.998	0.992	0.050
	[0.5,0.75)	1.240	1.252	0.079	1.033	1.043	0.055	1.004	1.013	0.051	0.996	1.006	0.051
	[0.75,0.95]	1.273	1.261	0.081	1.061	1.051	0.056	1.001	0.991	0.049	1.008	0.999	0.050
Additive	all	1.298	1.302	0.086	1.000	1.003	0.051	0.997	1.000	0.050	0.996	1.000	0.050
	[0.05,0.25)	1.299	1.290	0.085	1.001	0.994	0.050	0.998	0.991	0.049	1.008	1.000	0.050
	[0.25,0.5)	1.298	1.313	0.088	1.001	1.012	0.052	0.997	1.008	0.052	0.986	0.997	0.050
	[0.5,0.75)	1.301	1.320	0.088	1.003	1.017	0.053	1.000	1.014	0.052	0.989	1.003	0.051
	[0.75,0.95]	1.292	1.286	0.084	0.995	0.991	0.049	0.992	0.988	0.049	1.003	0.999	0.050
Dominant	all	1.202	1.203	0.074	1.000	1.001	0.050	1.000	1.000	0.050	1.000	1.000	0.050
	[0.05,0.25)	1.277	1.265	0.081	1.063	1.053	0.056	1.001	0.991	0.049	1.008	0.999	0.050
	[0.25,0.5)	1.243	1.252	0.079	1.035	1.042	0.054	1.003	1.011	0.051	0.997	1.005	0.051
	[0.5,0.75)	1.190	1.183	0.072	0.990	0.985	0.049	1.005	1.000	0.050	0.999	0.994	0.050
	[0.75,0.95]	1.104	1.112	0.064	0.919	0.925	0.042	0.991	0.998	0.050	0.995	1.002	0.051
Over-dominant	all	1.133	1.123	0.064	1.000	0.991	0.049	1.011	1.000	0.050	1.011	1.000	0.050
	[0.05,0.25)	1.203	1.193	0.072	1.061	1.053	0.056	1.017	1.010	0.051	1.011	1.003	0.050
	[0.25,0.5)	1.076	1.060	0.057	0.950	0.935	0.043	1.011	0.995	0.049	1.013	0.998	0.049
	[0.5,0.75)	1.064	1.053	0.056	0.939	0.929	0.042	1.000	0.989	0.049	1.004	0.993	0.049
	[0.75,0.95]	1.204	1.190	0.072	1.062	1.050	0.056	1.017	1.007	0.051	1.014	1.004	0.051
Genotypic (df = 2)	all	1.157	1.162	0.077	1.000	1.004	0.052	0.964	0.966	0.046	0.996	1.000	0.051
	[0.05,0.25)	1.163	1.159	0.077	1.005	1.002	0.052	0.973	0.969	0.047	1.004	1.001	0.051
	[0.25,0.5)	1.152	1.165	0.077	0.996	1.006	0.052	0.954	0.964	0.045	0.988	0.999	0.051
	[0.5,0.75)	1.151	1.164	0.077	0.995	1.006	0.052	0.953	0.963	0.046	0.989	1.000	0.051
	[0.75,0.95]	1.163	1.159	0.077	1.005	1.001	0.052	0.973	0.970	0.047	1.004	1.000	0.052

* for VIFGC corrected genotypic (2df) tests, we used the 1df based test by performing VIFGC-corrected tests for recessive and dominant models [3].

The abbreviations are as in Table 1. The values are given for all SNPs as well as for stratified frequency groups.