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 1 Information content

	Marker set	Number of marker in map	Mean minimum^a (SD)	Overall mean^a (SD)	Mean maximum^a (SD)
Simulated	MS (~7.5 cM)	416	0.812 (0.077)	0.934 (0.004)	0.9724 (0.005)
	SNP 3 cM	917	0.644 (0.084)	0.833 (0.015)	0.914 (0.010)
	SNP 1 cM^b	34	0.849 (0.018)	0.937 (0.006)	0.969 (0.006)
	SNP 0.3 cM^b	201	0.933 (0.013)	0.986 (0.001)	0.998 (0.001)
COGA	MS (~13.5 cM)	315	0.586 (0.078)	0.744 (0.060)	0.840 (0.064)
	SNP 3 cM	1103	0.674 (0.076)	0.747 (0.012)	0.820 (0.015)
	SNP 2 cM	1792	0.566 (0.074)	0.767 (0.010)	0.825 (0.010)
	SNP 1 cM	2382	0.692 (0.055)	0.868 (0.008)	0.910 (0.007)
	SNP 0.6 cM	3671	0.724 (0.059)	0.895 (0.006)	0.930 (0.006)
	SNP 0.3 cM	5405	0.751 (0.062)	0.916 (0.005)	0.943 (0.006)
	SNP 0.25 cM	15015	0.825 (0.046)	0.939 (0.005)	0.955 (0.003)

^aOverall mean, average minimum, and average maximum information content across all 3 populations and replicates for simulated data and across all 22 chromosomes for COGA data.
^bThe SNP 1 cM and SNP 0.3 cM map for the simulated data are based only on the regions for which fine mapping markers were purchased.

ISSN: 2730-6844