Table 3.

Multivariable adjusted^* haplotype analysis of genes in the one-carbon metabolism pathway and ovarian cancer risk among 1,770 Caucasian subjects, Mayo Clinic, MN and Duke University, NC, 1999–2006

Haplotype		Global P†	Estimated haplotype frequency	Score test ‡	Haplotype P§
No.	Allele combinations
	MTR||	0.04
1	AGCTAATT		0.12	−2.29	0.02
2	AACCGCCG		0.14	−1.45	0.14
3	AGTCACCG		0.002	−0.69	0.49
4	AGCTACCG		0.004	−0.07	0.94
5	GGCTAATT		0.26	0.26	0.79
6	AGCCGCCG		0.04	0.40	0.69
7	AGTTACCG		0.38	0.79	0.43
8	AGTTAATT		0.01	1.03	0.30
9	AGTTACCT		0.002	1.07	0.28
10	GGCTACCG		0.01	1.17	0.24
11	AGCTACCT		0.02	2.47	0.01
	SHMT1**	0.05
1	GTCAG		0.33	−2.56	0.01
2	ATCGG		0.01	−0.44	0.66
3	ACTAG		0.31	−0.01	0.99
4	GTCAA		0.10	1.21	0.23
5	GTCGG		0.25	2.14	0.03

^*Adjusted for age (<40, 40–49, 50–59, 60–69, 70+), state (MN, IA, WI, IL, ND/SD, NC), BMI in kg/m² (<23, 23–25.9, 26–28.9, 29+), postmenopausal hormone use (never, 1–60 months, 60+ months), oral contraceptive use (never, 1–48 months, 48+ months) and parity/age at first birth (nulliparous, 1–2/≤20 yrs, 1–2/>20 yrs, 3+/≤20 yrs, 3+/>20 yrs)

^†P value from the global score test of Schaid et al (36) across haplotypes.

^‡Score statistics comparing haplotype of interest with all other haplotypes combined. Negative values imply decreased risk of ovarian cancer, whereas positive values imply increased risk.

^§P value comparing haplotype of interest with all other haplotypes combined.

^||Haplotype-forming SNPs in MTR are rs12759827 (A>G), rs4659723 (G>A), rs4659724 (C>T), rs10925250 (T>C), rs1805087 (A>G), rs2853523 (C>A), rs1050993 (C>T), rs6676866 (G>T). Different alleles between significant haplotypes are underlined.

^**Haplotype-forming SNPs in SHMT1 are rs921986 (G>A), rs12952556 (T>C), rs1979277 (C>T), rs9909104 (A>G), rs2273026 (G>A). Different alleles between significant haplotypes are underlined.