Newly identified loci that influence lipid concentrations and risk of coronary artery disease.
- Authors
- Willer, Cristen J; Sanna, Serena; Jackson, Anne U; Scuteri, Angelo; Bonnycastle, Lori L; Clarke, Robert; Heath, Simon C; Timpson, Nicholas J; Najjar, Samer S; Stringham, Heather M; Strait, James; Duren, William L; Maschio, Andrea; Busonero, Fabio; Mulas, Antonella; Albai, Giuseppe; Swift, Amy J; Morken, Mario A; Narisu, Narisu; Bennett, Derrick; Parish, Sarah; Shen, Haiqing; Galan, Pilar; Meneton, Pierre; Hercberg, Serge; Zelenika, Diana; Chen, Wei-Min; Li, Yun; Scott, Laura J; Scheet, Paul A; Sundvall, Jouko; Watanabe, Richard M; Nagaraja, Ramaiah; Ebrahim, Shah; Lawlor, Debbie A; Ben-Shlomo, Yoav; Davey-Smith, George; Shuldiner, Alan R; Collins, Rory; Bergman, Richard N; Uda, Manuela; Tuomilehto, Jaakko; Cao, Antonio; Collins, Francis S; Lakatta, Edward; Lathrop, G Mark; Boehnke, Michael; Schlessinger, David; Mohlke, Karen L; Abecasis, GonΓ§alo R
- Year
- 2008
- Journal
- Nature genetics
- PMID
- 18193043
- DOI
- 10.1038/ng.76
- PMCID
- PMC5206900
To identify genetic variants influencing plasma lipid concentrations, we first used genotype imputation and meta-analysis to combine three genome-wide scans totaling 8,816 individuals and comprising 6,068 individuals specific to our study (1,874 individuals from the FUSION study of type 2 diabetes and 4,184 individuals from the SardiNIA study of aging-associated variables) and 2,758 individuals from the Diabetes Genetics Initiative, reported in a companion study in this issue. We subsequently examined promising signals in 11,569 additional individuals. Overall, we identify strongly associated variants in eleven loci previously implicated in lipid metabolism (ABCA1, the APOA5-APOA4-APOC3-APOA1 and APOE-APOC clusters, APOB, CETP, GCKR, LDLR, LPL, LIPC, LIPG and PCSK9) and also in several newly identified loci (near MVK-MMAB and GALNT2, with variants primarily associated with high-density lipoprotein (HDL) cholesterol; near SORT1, with variants primarily associated with low-density lipoprotein (LDL) cholesterol; near TRIB1, MLXIPL and ANGPTL3, with variants primarily associated with triglycerides; and a locus encompassing several genes near NCAN, with variants strongly associated with both triglycerides and LDL cholesterol). Notably, the 11 independent variants associated with increased LDL cholesterol concentrations in our study also showed increased frequency in a sample of coronary artery disease cases versus controls.
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| Chapter 11: Genome-wide association studies. | Bush WS et al. | β | 2012 | β |
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| Multiple members of the UDP-GalNAc: polypeptide N-acetylgalactosaminyltransferase family are essential for viability in Drosophila. | Tran DT et al. | β | 2012 | β |
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| Significant correlation between a set of genetic polymorphisms and a functional brain network revealed by feature selection and sparse Partial Least Squares. | Le Floch E et al. | β | 2012 | β |
| Single nucleotide polymorphisms (SNPs) involved in insulin resistance, weight regulation, lipid metabolism and inflammation in relation to metabolic syndrome: an epidemiological study. | Povel CM et al. | β | 2012 | β |
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| Location, location, location: new insights into O-GalNAc protein glycosylation. | Gill DJ et al. | β | 2011 | β |
| Meta-analysis of genome-wide association studies identifies common variants in CTNNA2 associated with excitement-seeking. | Terracciano A et al. | β | 2011 | β |
| Meta-analysis of published studies identified eight additional common susceptibility loci for Crohn's disease and ulcerative colitis. | Umeno J et al. | β | 2011 | β |
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| No impact of KIF6 genotype on vascular risk and statin response among 18,348 randomized patients in the heart protection study. | Hopewell JC et al. | β | 2011 | β |
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| A single nucleotide polymorphism in APOA5 determines triglyceride levels in Hong Kong and Guangzhou Chinese. | Jiang CQ et al. | β | 2010 | β |
| A single nucleotide polymorphism in the FADS1/FADS2 gene is associated with plasma lipid profiles in two genetically similar Asian ethnic groups with distinctive differences in lifestyle. | Nakayama K et al. | β | 2010 | β |
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| Association between CETP Taq1B and LIPC -514C/T polymorphisms with the serum lipid levels in a group of Tehran's population: a cross sectional study. | Kashani Farid MA et al. | β | 2010 | β |
| Association of repeatedly measured intermediate risk factors for complex diseases with high dimensional SNP data. | Waaijenborg S et al. | β | 2010 | β |
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| Association of the functional variant in the 3-hydroxy-3-methylglutaryl-coenzyme a reductase gene with low-density lipoprotein-cholesterol in Japanese. | Hiura Y et al. | β | 2010 | β |
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| Asthma-susceptibility variants identified using probands in case-control and family-based analyses. | Himes BE et al. | β | 2010 | β |
| ATHENA: A knowledge-based hybrid backpropagation-grammatical evolution neural network algorithm for discovering epistasis among quantitative trait Loci. | Turner SD et al. | β | 2010 | β |
| A triglyceride-raising APOA5 genetic variant is negatively associated with obesity and BMI in the Chinese population. | Wu CK et al. | β | 2010 | β |
| Biological, clinical and population relevance of 95 loci for blood lipids. | Teslovich TM et al. | β | 2010 | β |
| Clinical Implications of Lipid Genetics for Cardiovascular Disease. | Strong A et al. | β | 2010 | β |
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| Common genetic variation in multiple metabolic pathways influences susceptibility to low HDL-cholesterol and coronary heart disease. | Peloso GM et al. | β | 2010 | β |
| Common variants in 40 genes assessed for diabetes incidence and response to metformin and lifestyle intervention in the diabetes prevention program. | Jablonski KA et al. | β | 2010 | β |
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| Concordance of two multiple analytical approaches demonstrate that interaction between BMI and ADIPOQ haplotypes is a determinant of LDL cholesterol in a general French population. | Vasseur F et al. | β | 2010 | β |
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| Dyslipidemia in HIV-infected individuals: from pharmacogenetics to pharmacogenomics. | Tarr PE et al. | β | 2010 | β |
| Early identification of cardiovascular risk using genomics and proteomics. | Kullo IJ et al. | β | 2010 | β |
| Effects of PCSK9 genetic variants on plasma LDL cholesterol levels and risk of premature myocardial infarction in the Italian population. | Guella I et al. | β | 2010 | β |
| Epistasis contributes to the genetic buffering of plasma HDL cholesterol in mice. | Li RH et al. | β | 2010 | β |
| Excess of rare variants in genes identified by genome-wide association study of hypertriglyceridemia. | Johansen CT et al. | β | 2010 | β |
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| Fine-mapping in African Americans of 8 recently discovered genetic loci for plasma lipids: the Jackson Heart Study. | Keebler ME et al. | β | 2010 | β |
| From noncoding variant to phenotype via SORT1 at the 1p13 cholesterol locus. | Musunuru K et al. | β | 2010 | β |
| GCKR gene functional variants in type 2 diabetes and metabolic syndrome: do the rare variants associate with increased carotid intima-media thickness? | MohΓ‘s M et al. | β | 2010 | β |
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| Genetic determinants of major blood lipids in Pakistanis compared with Europeans. | Saleheen D et al. | β | 2010 | β |
| Genetic variants and their interactions in the prediction of increased pre-clinical carotid atherosclerosis: the cardiovascular risk in young Finns study. | Okser S et al. | β | 2010 | β |
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| Genetic variants influencing circulating lipid levels and risk of coronary artery disease. | Waterworth DM et al. | β | 2010 | β |
| Genetic variants near TIMP3 and high-density lipoprotein-associated loci influence susceptibility to age-related macular degeneration. | Chen W et al. | β | 2010 | β |
| Genetic variation at the phospholipid transfer protein locus affects its activity and high-density lipoprotein size and is a novel marker of cardiovascular disease susceptibility. | Vergeer M et al. | β | 2010 | β |
| Genetic variation in APOJ, LPL, and TNFRSF10B affects plasma fatty acid distribution in Alaskan Eskimos. | Voruganti VS et al. | β | 2010 | β |
| Genome3D: a viewer-model framework for integrating and visualizing multi-scale epigenomic information within a three-dimensional genome. | Asbury TM et al. | β | 2010 | β |
| Genome-wide association analysis of total cholesterol and high-density lipoprotein cholesterol levels using the Framingham heart study data. | Ma L et al. | β | 2010 | β |
| Genome-wide association of lipid-lowering response to statins in combined study populations. | Barber MJ et al. | β | 2010 | β |
| Genome-wide association scan of trait depression. | Terracciano A et al. | β | 2010 | β |
| Genome-wide association studies identify new targets in cardiovascular disease. | Calkin AC et al. | β | 2010 | β |
| Genome-wide association study of Lp-PLA(2) activity and mass in the Framingham Heart Study. | Suchindran S et al. | β | 2010 | β |
| Genome-wide meta-analysis for serum calcium identifies significantly associated SNPs near the calcium-sensing receptor (CASR) gene. | Kapur K et al. | β | 2010 | β |
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| Genomic approaches to coronary artery disease. | Padmanabhan S et al. | β | 2010 | β |
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| High prevalence of diabetes and pre-diabetes in adults with Williams syndrome. | Pober BR et al. | β | 2010 | β |
| Identification and characterization of novel loss of function mutations in ATP-binding cassette transporter A1 in patients with low plasma high-density lipoprotein cholesterol. | Candini C et al. | β | 2010 | β |
| Impact of combined deficiency of hepatic lipase and endothelial lipase on the metabolism of both high-density lipoproteins and apolipoprotein B-containing lipoproteins. | Brown RJ et al. | β | 2010 | β |
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| Linkage and association analyses identify a candidate region for apoB level on chromosome 4q32.3 in FCHL families. | Wijsman EM et al. | β | 2010 | β |
| Localization of genes for V+LDL plasma cholesterol levels on two diets in the opossum Monodelphis domestica. | Kammerer CM et al. | β | 2010 | β |
| Longitudinal genome-wide association of cardiovascular disease risk factors in the Bogalusa heart study. | Smith EN et al. | β | 2010 | β |
| MaCH: using sequence and genotype data to estimate haplotypes and unobserved genotypes. | Li Y et al. | β | 2010 | β |
| METAL: fast and efficient meta-analysis of genomewide association scans. | Willer CJ et al. | β | 2010 | β |
| Minor allele C of chromosome 1p32 single nucleotide polymorphism rs11206510 confers risk of ischemic stroke in the Chinese Han population. | Xu C et al. | β | 2010 | β |
| Multistudy fine mapping of chromosome 2q identifies XRCC5 as a chronic obstructive pulmonary disease susceptibility gene. | Hersh CP et al. | β | 2010 | β |
| No interaction between alcohol consumption and HDL-related genes on HDL cholesterol levels. | Marques-Vidal P et al. | β | 2010 | β |
| O-glycosylation modulates proprotein convertase activation of angiopoietin-like protein 3: possible role of polypeptide GalNAc-transferase-2 in regulation of concentrations of plasma lipids. | Schjoldager KT et al. | β | 2010 | β |
| Patterns of linkage disequilibrium in different populations: implications and opportunities for lipid-associated loci identified from genome-wide association studies. | Teo YY et al. | β | 2010 | β |
| Physiogenomic analysis of statin-treated patients: domain-specific counter effects within the ACACB gene on low-density lipoprotein cholesterol? | RuaΓ±o G et al. | β | 2010 | β |
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| Role of endothelial lipase in atherosclerosis. | Huang J et al. | β | 2010 | β |
| Serotonin (5-HT) receptor 5A sequence variants affect human plasma triglyceride levels. | Zhang Y et al. | β | 2010 | β |
| Sibship analysis of associations between SNP haplotypes and a continuous trait with application to mammographic density. | Stone J et al. | β | 2010 | β |
| Sort1, encoded by the cardiovascular risk locus 1p13.3, is a regulator of hepatic lipoprotein export. | Kjolby M et al. | β | 2010 | β |
| Strategies for identifying the genetic basis of dyslipidemia: genome-wide association studies vs. the resequencing of extremes. | Khor CC et al. | β | 2010 | β |
| Synthesis-View: visualization and interpretation of SNP association results for multi-cohort, multi-phenotype data and meta-analysis. | Pendergrass SA et al. | β | 2010 | β |
| The genetics of Alzheimer disease: back to the future. | Bertram L et al. | β | 2010 | β |
| The genetics of obesity and the metabolic syndrome. | Monda KL et al. | β | 2010 | β |
| The HDL hypothesis: does high-density lipoprotein protect from atherosclerosis? | Vergeer M et al. | β | 2010 | β |
| The KIF6 collapse. | Topol EJ et al. | β | 2010 | β |
| Three periods of one and a half decade of ischemic stroke susceptibility gene research: lessons we have learned. | Maasz A et al. | β | 2010 | β |
| Translating genomic analyses into improved management of coronary artery disease. | Johansen CT et al. | β | 2010 | β |
| Trib1 is a lipid- and myocardial infarction-associated gene that regulates hepatic lipogenesis and VLDL production in mice. | Burkhardt R et al. | β | 2010 | β |
| Triglyceride level modifying functional variants of GALTN2 and MLXIPL in patients with ischaemic stroke. | PolgΓ‘r N et al. | β | 2010 | β |
| Untangling HDL quantitative trait loci on mouse chromosome 5 and identifying Scarb1 and Acads as the underlying genes. | Su Z et al. | β | 2010 | β |
| WWOX gene is associated with HDL cholesterol and triglyceride levels. | SΓ‘ez ME et al. | β | 2010 | β |