On the impact of relatedness on SNP association analysis

BMC Genomic Data

Table 2 Simulation results for the test statistic T under the null hypothesis

Study	\(\bar {T}\)	\(\bar {S}^{2}\)	ν
HapMap	0.002 (0.037)	1.330 (0.096)	0.992
SFS1	-0.000 (0.037)	1.321 (0.107)	0.992
SFS2	-0.001 (0.037)	1.309 (0.076)	0.999
Sorbs	-0.001 (0.037)	1.412 (0.144)	0.999
SFS3	0.001 (0.043)	2.015 (0.166)	0.997

The test statistics \(\bar {T}\) averaged over replicates and SNPs and the average of the empirical variances \(\bar {S}^{2}\) are compared between HapMap, SFS1 (synthetic family study 1), SFS2, Sorbs and SFS3 assuming the null hypothesis and \(R^{2}_{\mathrm {h}}=0.9\). Standard deviations are presented in parentheses. We further provide an estimate of the deflation factor ν for the empirical variance of the effect estimate

ISSN: 2730-6844