Kernel score statistic for dependent data

BMC Proceedings

Table 1 Real SBP and candidate genes on chromosome 3

Gene	SNP panel	Kernel score statistic (linear kernel on allele dosage data)
		All SNPs		MAF >5%		MAF 1% to 5%		MAF <1%
		N_SNP	p Value	N_SNP	p Value	N_SNP	p Value	N_SNP	p Value
MECOM	GWAS	212	0.840	176	0.873	33	0.031	3	0.333
	Sequence	2530	0.826	1222	0.864	621	0.150	687	0.289
	Sequence	- 4 consecutive windows
		633	0.976	364	0.977	93	0.482	176	0.890
		633	0.557	229	0.709	198	0.0071	206	0.197
		632	0.251	340	0.252	161	0.371	131	0.137
		632	0.919	289	0.933	169	0.467	174	0.216
ULK4	GWAS	188	0.770	146	0.783	40	0.258	2	0.430
	Sequence	3333	0.510	1569	0.518	1007	0.302	757	0.459
	Sequence	- 5 consecutive windows
		667	0.661	314	0.648	177	0.499	176	0.301
		667	0.791	373	0.812	125	0.171	169	0.409
		667	0.738	296	0.813	208	0.108	163	0.446
		666	0.132	261	0.124	256	0.364	149	0.432
		666	0.141	325	0.132	241	0.540	100	0.830
PPARG	GWAS	148	0.693	90	0.664	32	0.880	26	0.998
	Sequence	583	0.841	269	0.803	121	0.989	193	0.990
AGTR1	GWAS	39	0.277	27	0.296	11	0.097	1	0.482
	Sequence	497	0.081	174	0.091	172	0.100	151	0.223
SLC4A7	GWAS	27	0.688	13	0.789	10	0.134	4	0.208
	Sequence	375	0.776	149	0.864	82	0.099	144	0.158

Kernel score test over N_SNP SNP marker for rank-normalized systolic blood pressure, adjusted for age, sex, age × sex interaction, and familial background (p ≤0.05 in bold).

ISSN: 1753-6561