Molecular Vision: Chen, Mol Vis 2009; 15:2349-2357. Table 4

Table 4. Haplotype Association analysis between the LOXL1 SNPs and XFS/XFG

Haplotype			Proportion		x²	p value	OR (95%CI)
Haplotype			Case	Control	x²	p value	OR (95%CI)
rs1048661	rs3825942
T	G		0.89	0.516	22.09	<1.00×10^-3	6.77 (2.69 - 17.03)
G	G		0.11	0.38	11.67	0.001	0.22 (0.09 - 0.55)
G	A		0	0.104	4.21	0.04	NA *
Total			NA	NA	20.36	<1.00×10^-3	NA
rs1048661	rs2165241
T	C		0.88	0.516	20.47	<1.00×10^-3	6.99 (2.78 - 17.58)
G	T		0.01	0.1	8.12	0.004	0.08 (0.01 - 0.62 )
T	T		0.01	0	2.52	0.112	NA *
G	C		0.1	0.384	13.64	<1.00×10^-3	0.18 (0.07 - 0.48)
Total			NA	NA	19.70	<1.00×10^-3	NA
rs3825942	rs2165241
G	C		0.98	0.8	9.15	0.002	12.18 (1.61 - 92.09)
G	T		0.02	0.1	1.95	0.163	NA *
A	C		0	0.1	9.159	0.002	0.001(0 - inf)
Total			NA	NA	13.45	0.001	NA
rs1048661	rs3825942	rs2165241
T	G	C	0.88	0.516	19.70	<1.00×10^-3	6.77 (2.69 - 17.03)
G	G	C	0.1	0.29	7.04	0.008	0.28 (0.10 - 0.75)
G	G	T	0.01	0.09	2.59	0.108	NA
T	G	T	0.01	0	2.51	0.113	NA *
G	A	C	0	0.094	3.76	0.052	NA *
G	A	T	0	0.01	0.40	0.526	NA *
Total			NA	NA	20.37	<1.00×10^-3	NA

The haplotypes T-G, T-C and G-C for the SNPs rs1048661 and rs3825942, rs1048661 and rs2165241, and rs3825942 and rs2165241 were identified to be significantly associated with XFS, respectively. The haplotype T-G-C for the three SNPs was identified to be significantly associated with XFS. Total indicate omnibus tests, while the others indicate the haplotype-specific tests. The OR values were obtained from comparision of each individual haplotype with all the other haplotypes, i.e., T-G versus G-G + G-A for the SNPs rs1048661 and rs3825942, et al. NA: not available. The asterisks indicate that the OR values were not available since differences between cases and controls were not significant for these haplotypes (p>0.017).