A novel algorithm for simultaneous SNP selection in high-dimensional genome-wide association studies

BMC Bioinformatics

Table 4 True SNPs found among the top 100 SNPs identified by CAR scores in at least 50 of the 200 repetitions for Q1 and Q2

	SNP	Frequency	MAF	BETA	Correlation
Q1					0.014
	ARNT \| C1S6533	88	0.011478	0.56190
	FLT1 \| C13S431	110	0.017217	0.74136	0.147
	FLT1 \| C13S522	200	0.027977	0.61830	0.147
	FLT1 \| C13S523	200	0.066714	0.64997	0.147
	FLT1 \| C13S524	164	0.004304	0.62223	0.147
	KDR \| C4S1877	145	0.000717	1.07706	0.111
	KDR \| C4S1878	101	0.164993	0.13573	0.111
	KDR \| C4S1884	95	0.020803	0.29558	0.111
	VEGFA \| C6S2981	69	0.002152	1.20645
	VEGFC \| C4S4935	91	0.000717	1.35726
Q2					0.008
	BCHE \| C3S4869	54	0.000717	1.01569	0.001
	BCHE \| C3S4875	59	0.000717	1.09484	0.001
	LPL \| C8S442	69	0.015782	0.49459
	SIRT1 \| C10S3048	54	0.002152	0.83224	0.330
	SIRT1 \| C10S3050	72	0.002152	0.97060	0.330
	VNN1 \| C6S5380	138	0.170732	0.24437
	VNN3 \| C6S5441	59	0.098278	0.27053	0.066
	VNN3 \| C6S5449	57	0.010043	0.66909	0.066

The last column shows the average absolute correlation among all SNPs for Q1 and Q2 as well as the average absolute correlation for the SNPs belonging to one gene.

ISSN: 1471-2105