Lipids in Health and Disease

Table 5 Assessment of association between haplotypes made up of four SNPs with CHD

From: Lack of association between four SNPs in the SLC22A3-LPAL2-LPA gene cluster and coronary artery disease in a Chinese Han population: a case control study

		Frequency
SNPs	Haplotype	Case	Control	OR	†P-obs	‡P cpemp
rs2048327\|rs3127599					0.14*	0.36*
\|rs7767084\|rs10755578	CCCC	0.255	0.246	1.06	0.47	0.99
	TTTC	0.123	0.109	1.12	0.30	0.95
	CCTC	0.025	0.033	0.71	0.11	0.64
	TCTC	0.013	0.008	1.75	0.16	0.78
	CCTG	0.128	0.14	0.92	0.40	0.98
	TCTG	0.457	0.465	0.96	0.61	1
rs2048327\|rs3127599					0.28*	0.60*
\|rs7767084	CCC	0.258	0.25	1.05	0.52	1
	TTT	0.129	0.116	1.09	0.40	0.98
	CCT	0.15	0.17	0.88	0.15	0.76
	TCT	0.463	0.464	0.99	0.91	1
rs2048327\|rs3127599					0.17*	0.41*
\|rs10755578	TTC	0.125	0.114	1.09	0.43	1
	CCC	0.274	0.274	1.01	0.95	1
	TCC	0.023	0.014	1.82	0.04	0.33
	CCG	0.13	0.143	0.92	0.38	0.98
	TCG	0.447	0.455	0.97	0.62	1
rs2048327\|rs7767084					0.18*	0.43*
\|rs10755578	CCC	0.257	0.249	1.05	0.56	1
	CTC	0.025	0.032	0.68	0.11	0.66
	TTC	0.134	0.117	1.15	0.20	0.85
	CTG	0.126	0.14	0.90	0.32	0.96
	TTG	0.458	0.463	0.97	0.69	1
rs3127599\|rs7767084					0.43*	0.78*
\|rs10755578	CCC	0.262	0.251	1.07	0.37	0.98
	TTC	0.122	0.108	1.11	0.33	0.96
	CTC	0.038	0.04	0.90	0.56	1
	CTG	0.579	0.601	0.92	0.27	0.93
rs2048327\|rs3127599					0.66*	0.93*
	TT	0.127	0.117	1.07	0.52	1
	CC	0.405	0.416	0.97	0.62	1
	TC	0.468	0.466	1.01	0.89	1
rs3127599\|rs7767084					0.35*	0.69*
	CC	0.265	0.254	1.07	0.37	0.98
	TT	0.128	0.117	1.07	0.50	1
	CT	0.607	0.629	0.92	0.22	0.88
rs7767084\|rs10755578					0.37*	0.71*
	CC	0.264	0.254	1.06	0.42	1
	TC	0.158	0.147	1.05	0.62	1
	TG	0.579	0.599	0.92	0.24	0.91
rs2048327\|rs7767084					0.24*	0.53*
	CC	0.257	0.248	1.06	0.49	1
	CT	0.152	0.172	0.87	0.14	0.73
	TT	0.591	0.581	1.03	0.70	1
rs2048327\|rs10755578					0.16*	0.39*
	CC	0.274	0.279	0.97	0.67	1.
	TC	0.146	0.122	1.27	0.03	0.29
	CG	0.130	0.138	0.96	0.72	1
	TG	0.450	0.461	0.94	0.41	0.98
rs3127599\|rs10755578					0.39*	0.73*
	TC	0.125	0.115	1.06	0.57	1
	CC	0.298	0.288	1.05	0.53	1
	CG	0.578	0.597	0.93	0.30	0.95

†P-obs, uncorrected P value. ‡P-emp, permutation P value calculated using 100 000.
Monte Carlo simulations.
* Uncorrected P value and permutation P value for a single omnibus test, which jointly estimate a testing all haplotype effects at the position, df = H-1, if there are H haplotypes at the position.
OR, odds ratio. OR for every haplotype was calculated taking all the rest haplotypes together as reference.

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