Table 2.

Transmission-disequilibrium test analysis of Chr15:67,025K..67,483K region SNPs and haplotypes with atherogenic dyslipidemia in 40 Turkish families

						Triglycerides					HDL-C
#	SNP	Position	Alleles^a	Frequency^b	Overtransmitted allele	T^c	U^c	T/U^c	p	Permuted p^d	T^c	U^c	T/U^c	p	Permuted p^d
1	rs3743093	67,025,498	A/G	0.474	A	20	12	1.67	NS		28	25	1.12	NS
2	rs12907196	67,115,279	C/T	0.482	T	20	12	1.67	NS		23	19	1.21	NS
3	rs11072067	67,199,022	C/T	0.368	T	22	11	2.00	0.056	NS	41	28	1.46	NS	NS
4	rs7177250	67,225,596	T/A	0.114	–	6	6	1.00	NS		14	12	1.17	NS
5	rs17358457	67,230,768	T/C	0.088	C	5	4	1.25	NS		11	10	1.10	NS
6	rs16952868	67,233,927	A/C	0.483	C	25	13	1.92	0.052	NS	48	35	1.37	NS	NS
7	rs11631403	67,236,313	C/T	0.369	T	21	9	2.33	0.029	0.075	39	24	1.63	0.059	NS
8	rs1553251	67,236,900	C/T	0.369	T	21	9	2.33	0.029	0.075	39	24	1.63	0.059	NS
9	rs7176782	67,264,433	A/G	0.422	G	23	11	2.09	0.040	NS	44	33	1.33	NS	NS
10	rs4777126	67,294,513	C/T	0.11	C	7	4	1.75	NS		14	9	1.56	NS
11	rs11629932	67,323,011	C/T	0.431	T	25	13	1.92	0.052	NS	47	35	1.34	NS	NS
12	rs17360351	67,329,100	A/G	0.119	G	17	7	2.43	0.041	NS	26	12	2.17	0.023	0.094
13	rs3865014	67,348,571	A/G	0.308	G	20	8	2.50	0.023	0.062	36	19	1.89	0.022	0.076
14	rs6545	67,351,396	T/C	0.407	C	25	12	2.08	0.033	0.087	45	31	1.45	NS	NS
15	rs2047822	67,351,961	C/G	0.106	C	6	5	1.20	NS		13	12	1.08	NS
16	rs905508	67,358,721	C/T	0.151	T	16	9	1.78	NS		22	17	1.29	NS
17	rs7171293	67,367,474	G/A	0.071	G	5	3	1.67	NS		10	8	1.25	NS
18	rs12593391	67,379,320	C/T	0.442	T	24	14	1.71	NS		45	36	1.25	NS
19	rs10851802	67,383,494	G/A	0.312	A	23	9	2.56	0.013		38	25	1.52	NS
20	rs12441411	67,384,261	A/G	0.032	A	5	3	1.67	NS		6	6	1.00	NS
21	rs7173953	67,385,179	A/T	0.373	A	22	11	2.00	0.056		42	31	1.35	NS
22	rs7173355	67,385,566	C/T	0.422	T	23	14	1.64	NS		47	35	1.34	NS
23	rs870335	67,392,196	G/T	0.39	T	24	11	2.18	0.028		47	33	1.42	NS
24	rs8034725	67,393,781	T/C	0.03	T	7	2	3.50	NS		9	6	1.50	NS
25	rs16953133	67,404,769	C/T	0.028	C	6	2	3.00	NS		8	6	1.33	NS
26	rs7182765	67,410,893	C/G	0.054	C	5	1	5.00	NS		8	6	1.33	NS
27	rs4505253	67,415,937	T/C	0.25	C	18	11	1.64	NS		34	18	1.89	0.027
28	rs12900857	67,436,279	A/C	0.05	A	6	2	3.00	NS		9	7	1.29	NS
29	rs7172559	67,464,551	C/T	0.011	–	1	1	1.00	NS		2	1	2.00	NS
30	rs1394415	67,483,302	C/T	0.036	C	2	1	2.00	NS		5	3	1.67	NS
31	rs3743096	67,483,365	G/T	0.017	–	0	0	0.00	NS		1	1	1.00	NS

Haplotype	Frequency^b	T^c	U^c	T/U^c	p	Permuted p^d	T^c	U^c	T/U^c	p	Permuted p^d
CACCACAAT	0.461	16	26	0.62	NS	NS	37	49	0.76	NS	NS
TCTTGTAGC	0.131	6	3	2.00	NS	NS	10	11	0.91	NS	NS
CCCCGTAAC	0.108	6	5	1.20	NS	NS	12	13	0.92	NS	NS
TCTTGTGGC	0.094	15	5	3.00	0.025	0.013	25	8	3.13	0.003	0.006
TCTTACAAT	0.052	1	2	0.50	NS	NS	4	4	1.00	NS	NS
CCTTGTAGC	0.051	0	1	0.00	NS	NS	2	3	0.67	NS	NS
TACCACAAT	0.026	0	0	0.00	NS	NS	0	0	0.00	NS	NS
TCTTGCAAT	0.019	1	1	1.00	NS	NS	4	4	1.00	NS	NS

Haplotypes consisting of markers (n = 9) in GLCE locus are shown in bold and other significant or borderline significant SNPs (n = 4) outside the haplotype block are shown in italic. NS, not significant (p ≥ 0.1).

Common/rare in Turkish families in forward strand (UCSC genome browser on the human March 2006 assembly).

Frequency of rare allele in parental chromosomes.

Transmitted and untransmitted chromosomes and the transmission ratio (T/U).

Permutation p values were calculated from 50,000 random iterations of the genotype data in Haploview and corrected for multiple testing.