Investigation of altering single-nucleotide polymorphism density on the power to detect trait loci and frequency of false positive in nonparametric linkage analyses of qualitative traits

Table 5 Type I error count in densely mapped simulated data

Trait	Marker set	Pop. dz. freq.	# of replicates with data	Mean number of false positives below p-value criterion of^a
				0.05	0.01	0.0017	0.001	0.0001	0.000049
Dominant
D8044	SNP 1 cM	0.06	300	0.157	0.063	0	0	0	0
	SNP 0.3 cM			0.177	0.053	0.010	0.007	0	0
D8050	SNP 1 cM	0.18	300	0.146	0.003	0.007	0.007	0.003	0
	SNP 0.3 cM			0.18	0.037	0.013	0.007	0.003	0
D8051	SNP 1 cM	0.50	300	0.230	0.057	0.02	0.013	0	0
	SNP 0.3 cM			0.280	0.100	0.02	0.017	0	0
Recessive
R8045	SNP 1 cM	0.08	300	0.113	0.037	0.007	0.003	0	0
	SNP 0.3 cM			0.147	0.050	0.003	0	0	0
R8050	SNP 1 cM	0.01	229	0.039	0.004	0	0	0	0
	SNP 0.3 cM			0.037	0.004	0	0	0	0
R8051	SNP 1 cM	0.22	300	0.160	0.060	0.020	0.020	0.007	0.007
	SNP 0.3 cM			0.183	0.063	0.020	0.003	0.007	0.007

^aMean number of false positive results in the ~18 cM unlinked region per replicate with p-value below the following criteria.

ISSN: 2730-6844