We evaluated six estrogen receptor 1 (ESR1) polymorphisms for association with ten plasma lipid and apolipoprotein traits in 1,847 individuals (941 females and 906 males) in the multi-generation Rochester Family Heart Study using a generalized estimating equation approach. Apolipoprotein A-I (apoA-I), apoA-II, and HDL-cholesterol (HDL-C) were associated with exon 4 rs1801132 (Pro325Pro) genotype (P 5 0.0044, P 5 0.0048, and P 5 0.0035, respectively). Positive correlation between levels of apoA-I, apoA-II, and HDL-C and the number of G alleles was observed in females (P 5 0.0120, P 5 0.0032, and P 5 0.0030), but not males (P . 0.05). Because few studies have evaluated the effect of ESR1 gene polymorphisms on lipid traits in children, we also stratified our sample at the age of 15 years. There was evidence of association between intron 1 singlenucleotide polymorphisms rs9322331 and rs9340799 and apoC-II, and triglycerides (TGs) in youths 15 years and younger. In youths, evidence of association between rs9322331 and rs9340799 and apoC-II was stronger in males (P 5 0.0036 and P 5 0.0124) than in females (P . 0.05), whereas evidence of association with TG was stronger in females (P 5 0.0030 and P 5 0.0024) than in males (P . 0.05). These findings suggest that ESR1 variation plays an age-and sexdependent role in determining plasma lipid and apolipoprotein levels. High levels of serum LDL-cholesterol (LDL-C) and low levels of HDL-C are independent risk factors for coronary artery disease (CAD). Women have a lower lifetime risk of CAD than do men, and the difference in risk may be attributed in part to a generally later onset of high LDL-C levels (.100 mg/dl) and a slower decline in HDL-C level (1, 2). The influence of estrogen has been proposed as one of the underlying factors in the differential risk profiles of women and men, making estrogen receptor a a candidate for predicting plasma lipid and apolipoprotein levels (3, 4).Estrogen receptor a, encoded by the estrogen receptor 1 (ESR1) gene on chromosome 6, has been demonstrated to influence the expression of proteins involved in the regulation of plasma lipid metabolism, such as apolipoprotein E (apoE), LDL receptor, and scavenger class B type 1 receptor (5-7). DNA variation in the ESR1 gene region has been associated with variation among individuals for components of the plasma lipid profile, including apoA-I, apoB, HDL-C, LDL-C, triglyceride (TG) levels, and HDL and LDL particle size (8)(9)(10)(11). Results from studies of association between plasma lipids and ESR1 polymorphisms have been mixed, however, with negative results reported for association with apoA-I, HDL-C, LDL-C, total cholesterol (TC), and TG. (9-11).In this study, we evaluate six ESR1 single-nucleotide polymorphisms (SNPs) for their association with ten measures of plasma lipids and apolipoproteins. We took advantage of the multi-generation pedigree structure of the Rochester Family Heart Study (RFHS) to evaluate associations within sex and after stratifying at age 15. We find strong evide...