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Publication: Replication of genetic associations with plasma lipoproteins and triglycerides in a multi-ethnic sample using a targeted cardiovascular SNP microarray.

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Title Replication of genetic associations with plasma lipoproteins and triglycerides in a multi-ethnic sample using a targeted cardiovascular SNP microarray.
Authors/Editors* Lanktree MB, Anand SS, Yusuf S, Hegele RA.
Where published* J Lipid Res
How published* Journal
Year* 2009
Volume 50
Number
Pages 1487-1496
Publisher
Keywords
Link 19299407
Abstract
Recent genome-wide association studies have reproducibly identified loci associated with plasma triglyceride (TG), HDL cholesterol, and LDL cholesterol. We sought to replicate these findings in a multiethnic population-based cohort using the curated single-nucleotide polymorphism (SNP) set found on the new Illumina cardiovascular disease (CVD) beadchip, which contains ~50,000 SNPs densely mapping ~2100 genes, selected based on their potential role in CVD. The sample consisted of individuals with European (N = 272), South Asian (N = 330), and Chinese (N = 304) ancestry. Identity by state clustering successfully classified individuals according to selfreported ethnicities. Associations between TG and APOA5, TG and LPL, HDL and CETP, and LDL and APOE were all identified (P < 2 x 10-6). In 13 loci, associations with the same SNP or a proxy SNP were identified in the same direction as previously reported (P < 0.05). Finally, assessing the cumulative number of risk-associated alleles at multiple replicated SNPs produced an increment in the lipoprotein trait variance that could be explained versus models including age, sex, BMI and ethnicity. The findings indicate the potential utility of the Illumina CVD beadchip, but underscore the need to consider meta-analysis of results from commonly studied clinical or epidemiological samples.
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