Analysis of the progression of systolic blood pressure using imputation of missing phenotype values

BMC Proceedings

Table 2 Single-marker analysis of ∆SBP/∆t on unrelated individuals

SNP	Position	Alleles	MAF	HWE	β ± σ	p _i	p _i ^MC	p _r	p _r ^MC
rs3093642	1-25687742	T/C	0.02	1.23e-5*	2.68 ± 0.41	1.35e-9	0†	0.57	0.49
rs13157168	5-86627138	A/G	0.01	0.893	3.83 ± 0.64	2.45e-8	0†	0.48	0.41
rs956918	9-436983	C/A	0.05	0.002	1.54 ± 0.29	4.14e-7	4.00e-7	0.04	0.05
rs6960510	7-147977001	G/A	0.04	0.641	1.91 ± 0.37	1.32e-6	1.60e-6	0.27	0.26
rs7120076	11-111404684	G/A	0.02	1.23e-5*	2.17 ± 0.43	1.38e-6	1.00e-7	0.46	0.39
rs11803060	1-76549233	C/T	0.04	0.644	1.82 ± 0.37	3.14e-6	3.10e-6	0.40	0.39
rs11665668	19-52169702	A/G	0.04	0.029	1.69 ± 0.35	3.47e-6	3.10e-6	0.09	0.08
rs1340503	9-78571504	C/T	0.20	0.471	0.90 ± 0.19	3.78e-6	4.10e-6	0.09	0.09
rs6860971	5-88552414	T/C	0.04	0.103	1.52 ± 0.32	7.18e-6	8.90e-6	0.36	0.34
rs1202389	7-148913645	T/G	0.06	0.449	1.43 ± 0.31	7.46e-6	9.80e-6	0.49	0.48
rs10438410	15-92055287	T/C	0.03	0.749	2.07 ± 0.44	7.61e-6	9.30e-6	0.44	0.40
rs1524846	15-24025870	G/T	0.02	0.785	2.25 ± 0.48	8.18e-6	8.80e-6	0.01	0.02
rs12269879	11-108413351	A/G	0.02	0.857	2.67 ± 0.58	8.91e-6	9.70e-6	0.25	0.22

*Indicates p-values for Hardy-Weinberg equilibrium close to the exclusion criterion.
†None of 10⁸ permutation replicates had a more extreme test statistic than the real data.
The best results of the single-marker analysis are shown with SNP ID; physical base-pair position; minor/major alleles, MAF; Hardy-Weinberg equilibrium (HWE) p-value; regression coefficient β with standard deviation σ; p-value p_i of the single-marker analysis performed on the imputed phenotypes; p-value of the Monte-Carlo simulation p_i^MC corresponding to p_i; p-value p_r of the single-marker analysis performed on SNPs listed in the table and on real phenotypes; and p-value of the Monte-Carlo simulation p_r^MC corresponding to p_r.

ISSN: 1753-6561