Evaluation of genetic risk scores for lipid levels using genome-wide markers in the Framingham Heart Study

BMC Proceedings

Table 2 The two most significant haplotypes^a for each phenotype

Phenotype	Chr	SNPs	Haplotype	Model	p-Value	Effect size^b
HDL-C	5	rs922556, rs10070979	1-2	Dominant	8.0 × 10^-6	-16.1 mg/dL
HDL-C	3	rs2724721, rs384828	2-2	Dominant	5.1 × 10^-4	-1.9 mg/dL
LDL-C	6	rs316024, rs576075, rs614564, rs533452	2-1-1-1	Dominant	5.3 × 10^-5	3.4 mg/dL
LDL-C	7	rs4947934, rs4947936	2-1	Additive	6.0 × 10^-5	16.4 mg/dL
TG	3	rs7645357, rs4685635	2-2	Additive	5.0 × 10^-4	-9.0 mg/dL
TG	10	rs603269, rs475945	2-2	Additive	6.0 × 10^-4	3.0 mg/dL

^aSNPs with p < 10^-2 and p > 10^-4 were used to construct haplotypes and associations were tested in hapConstructor [9]
^bMean (TG: median) difference for listed haplotype vs. most common haplotype

ISSN: 1753-6561