An aggregating U-Test for a genetic association study of quantitative traits

BMC Proceedings

Table 1 Power comparison of the aggregating U-Test and QuTie

Group	Gene	Number of causal SNPs/Total number of SNPs in gene		Power (QuTie)	Power (aggregated U)	Type I error (aggregated U)
		Rare variants	Common variants
1^a	FLT1	11/35		0.86	1.000	0.036
		8/25	3/10
2^b	VEGFC	1/1		0.745	0.785	0.054
		1/1	0/0
3^c	ELAVL4	2/10		0.025	0.585	0.050
		2/7	0/3
	FLT4	2/10		0.58	0.715	0.060
		2/8	0/2
	HIF1A	4/8		0.215	0.915	0.048
		3/7	1/1
	VEGFA	1/6		0	0.265	0.060
		1/5	0/1
4^d	KDR	10/16		0.99	0.840	0.038
		8/14	2/2
5^e	HIF3A	3/21		0.055	0.05	0.040
		3/15	0/6
	ARNT	5/18		0.05	0.07	0.038
		4/15	1/3

^a Common SNPs within a gene are causal with large effect.
^b All rare SNPs within a gene are causal with large effect.
^c A small proportion of rare variants are causal.
^d A majority of rare variants are causal.
^e A small proportion of rare variants are causal, each carrying a small effect.

ISSN: 1753-6561