Genetic Variants Influencing Circulating Lipid Levels and Risk of Coronary Artery Disease
Open accessAbstract
Objective— Genetic studies might provide new insights into the biological mechanisms underlying lipid metabolism and risk of CAD. We therefore conducted a genome-wide association study to identify novel genetic determinants of low-density lipoprotein cholesterol (LDL-C), high-density lipoprotein cholesterol (HDL-C), and triglycerides. Methods and Results— We combined genome-wide association data from 8 studies, comprising up to 17 723 participants with information on circulating lipid concentrations. We did independent replication studies in up to 37 774 participants from 8 populations and also in a population of Indian Asian descent. We also assessed the association between single-nucleotide polymorphisms (SNPs) at lipid loci and risk of CAD in up to 9 633 cases and 38 684 controls. We identified 4 novel genetic loci that showed reproducible associations with lipids (probability values, 1.6×10 −8 to 3.1×10 −10 ). These include a potentially functional SNP in the SLC39A8 gene for HDL-C, an SNP near the MYLIP/GMPR and PPP1R3B genes for LDL-C, and at the AFF1 gene for triglycerides. SNPs showing strong statistical association with 1 or more lipid traits at the CELSR2 , APOB , APOE-C1-C4-C2 cluster, LPL , ZNF259-APOA5-A4-C3-A1 cluster and TRIB1 loci were also associated with CAD risk (probability values, 1.1×10 −3 to 1.2×10 −9 ). Conclusion— We have identified 4 novel loci associated with circulating lipids. We also show that in addition to those that are largely associated with LDL-C, genetic loci mainly associated with circulating triglycerides and HDL-C are also associated with risk of CAD. These findings potentially provide new insights into the biological mechanisms underlying lipid metabolism and CAD risk.
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Recent genome-wide association studies identify IDOL as a novel modulator of LDL in humans.
“Recent genome-wide association studies identify IDOL as a novel modulator of LDL in humans, thus implicating IDOL as a potential therapeutic target (35)(36)(37).”
From Distinct Functional Domains Contribute to Degradation of the Low Density Lipoprotein Receptor (LDLR) by the E3 Ubiquitin Ligase Inducible Degrader of the LDLR (IDOL) (2011) · cites this paper as [35]
The Results section (‘MYLIP–GMPR’) reports a genome-wide association between LDL cholesterol and SNPs at a locus near MYLIP, also called IDOL, and notes a report implicating IDOL in LDL regulation. The associated SNP lies between MYLIP and GMPR, however, so this study does not establish that IDOL itself—rather than the locus—is responsible for the association. (LLM, conf=0.82)
Experimental — accuracy not yet measuredIn recent GWASs and a GWAS meta-analysis of populations of mixed European descent, there were 3 independent (r2 < 0.3) genome-wide significant signals in the MYLIP region, none of which resides within the MYLIP gene.
“In recent GWASs and a GWAS meta-analysis of populations of mixed European descent (6-8), there were 3 independent (r 2 < 0.3) genome-wide significant signals in the MYLIP region, none of which resides within the MYLIP gene.”
From The N342S MYLIP polymorphism is associated with high total cholesterol and increased LDL receptor degradation in humans (2011) · cites this paper as [8]
The Results section (MYLIP–GMPR; page unavailable) identifies a genome-wide significant LDL-c association at the MYLIP/GMPR locus and places rs2142672 between the two genes. It does not report three independent signals, establish r² < 0.3 among them, or show that all three lie outside MYLIP; instead, it describes other associated SNPs as correlated with rs2142672. (LLM, conf=0.85)
Experimental — accuracy not yet measuredAnother GWAS signal was detected by the SNPs rs2327951 and rs2142672 that mapped and tagged variants 48-49 kb downstream from MYLIP.
“Another GWAS signal was detected by the SNPs rs2327951 (6) and rs2142672 (8) that mapped and tagged variants 48-49 kb downstream from MYLIP.”
From The N342S MYLIP polymorphism is associated with high total cholesterol and increased LDL receptor degradation in humans (2011) · cites this paper as [8]
The Results section (MYLIP–GMPR; page unavailable) reports an LDL-c association for rs2142672 and places it in a high-linkage-disequilibrium block between MYLIP and GMPR, correlated with other SNPs around MYLIP. It does not specify that the SNP or the variants it tags are 48–49 kb downstream of MYLIP. The citation to this paper is attached to rs2142672, not rs2327951. (LLM, conf=0.85)
Experimental — accuracy not yet measuredIDOL is a potential therapeutic target.
“thus implicating IDOL as a potential therapeutic target (35)(36)(37).”
GWASs in cohorts of mixed European descent have identified noncoding SNPs in the region of the MYLIP gene that are associated with LDL-C levels.
“Recent genome-wide association studies (GWASs) in cohorts of mixed European descent have identified noncoding SNPs in the region of the MYLIP gene that are associated with LDL-C levels (6)(7)(8), thus demonstrating for the first time genetic association between the MYLIP gene and lipid levels in humans.”
From The N342S MYLIP polymorphism is associated with high total cholesterol and increased LDL receptor degradation in humans (2011) · cites this paper as [8]
The GWAS variants of the other 2 associated LD groups, rs3757354 and rs2327951/rs2142672, were nominally associated with high TC in the Mexican dyslipidemic study sample for the same risk allele as in Europeans.
“The GWAS variants of the other 2 associated LD groups, rs3757354 (6) and the SNPs rs2327951 (6) and rs2142672 (8), which are in full LD (r 2 ≥ 0.97) in both Europeans and Mexicans, were nominally associated with high TC in the Mexican dyslipidemic study sample for the same risks allele as in Europeans (Figure 2B and Supplemental Table 4).”
From The N342S MYLIP polymorphism is associated with high total cholesterol and increased LDL receptor degradation in humans (2011) · cites this paper as [8]
The Results section on replication examines Indian Asian participants, not a Mexican dyslipidemic sample. Searches of our copy for rs3757354 and rs2327951 found no passages identifying those variants or their European risk alleles, so the claim attributed to this source cannot be verified. (LLM, conf=0.72)
Experimental — accuracy not yet measured
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InfluentialSelf-citation
- Authors
- Waterworth, D. M., Ricketts, S. L., Song, K., Chen, L., Zhao, J. H., Ripatti, S., Aulchenko, Y. S., Zhang, W., Yuan, X., Lim, N., Luan, J., Ashford, S., Wheeler, E., Young, E. H., Hadley, D., Thompson, J. R., Braund, P. S., Johnson, T., Struchalin, M., Surakka, I., Luben, R., Khaw, K.-T., Rodwell, S. A., Loos, R. J. F., Boekholdt, S. M., Inouye, M., Deloukas, P., Elliott, P., Schlessinger, D., Sanna, S., Scuteri, A., Jackson, A., Mohlke, K. L., Tuomilehto, J., Roberts, R., Stewart, A., Kesäniemi, Y. A., Mahley, R. W., Grundy, S. M., Wellcome Trust Case Control Consortium, McArdle, W., Cardon, L., Waeber, G., Vollenweider, P., Chambers, J. C., Boehnke, M., Abecasis, G. R., Salomaa, V., Järvelin, M.-R., Ruokonen, A., Barroso, I., Epstein, S. E., Hakonarson, H. H., Rader, D. J., Reilly, M. P., Witteman, J. C. M., Hall, A. S., Samani, N. J., Strachan, D. P., Barter, P., van Duijn, C. M., Kooner, J. S., Peltonen, L., Wareham, N. J., McPherson, R., Mooser, V., & Sandhu, M. S.
- Affiliations
- Broad Institute (US)
- From the Genetics Division, GlaxoSmithKline R&D, King of Prussia, Pa (D.M.W., K.S., X.Y., N.L., L. Cardon, V.M.); Department of Public Health and Primary Care, Strangeways Research Laboratory (S.L.R., S.A., E.H.Y., R.L., K.-T.K., M.S.S.) and Department of Public Health and Primary Care (S.A.R.), University of Cambridge, Cambridge, United Kingdom; Division of Cardiology, University of Ottawa Heart Institute, Ottawa, Ontario, Canada (L. Chen, R.R., A. Stewart, R.M.); Medical Research Council...
- ORCID
- Waterworth, Dawn M.
- Ricketts, Sally L.
- Zhao, Jing Hua
- Ripatti, Samuli
- Aulchenko, Yurii S.
- Zhang, Weihua
- Yuan, Xin
- Lim, Noha
- Luan, Jian'an
- Ashford, Sofie
- Wheeler, Eleanor
- Braund, Peter S.
- Johnson, Toby
- Struchalin, Maksim
- Surakka, Ida
- Luben, Robert
- Khaw, Kay-Tee
- Loos, Ruth J.F.
- Boekholdt, S. Matthijs
- Inouye, Michael
- Elliott, Paul
- Sanna, Serena
- Scuteri, Angelo
- Jackson, Anne
- Mohlke, Karen L.
- Roberts, Robert
- Stewart, Alexandre
- Mahley, Robert W.
- Grundy, Scott M.
- Chambers, John C.
- Boehnke, Michael
- Salomaa, Veikko
- Hakonarson, Hakon H.
- Rader, Daniel J.
- Reilly, Muredach P.
- Hall, Alistair S.
- Samani, Nilesh J.
- Strachan, David P.
- Kooner, Jaspal S.
- Peltonen, Leena
- Wareham, Nicholas J.
- McPherson, Ruth
- Mooser, Vincent
- Sandhu, Manjinder S.
- Venue
- Arteriosclerosis, Thrombosis, and Vascular Biology
- Published
- 2010-11
- Volume
- 30
- Issue
- 11
- Pages
- 2264-2276
- ISSN
- 1079-5642 (ISSN-L)
- 1524-4636
- PMC
- PMC3891568
- OpenAlex
- W2112390338
- Cited by
- 405
- References
- 10
- Citations by year
- 2026: 10 · 2025: 12 · 2024: 13 · 2023: 15 · 2022: 21 · 2021: 19 · 2020: 18 · 2019: 22 · 2018: 16 · 2017: 21 · 2016: 34 · 2015: 36 · 2014: 46 · 2013: 36 · 2012: 49
- FWCI
- 21.73
- Type
- journal article
- Language
- en
- Open access
- bronze
- doi.org
- Locations
- Arteriosclerosis Thrombosis and Vascular Biology (publishedVersion)
- PubMed (publishedVersion)
- EUR Research Repository (Erasmus University Rotterdam) (publishedVersion)
- Bristol Research (University of Bristol) (publishedVersion)
- Europe PMC (PubMed Central) (acceptedVersion)
- PubMed Central (acceptedVersion)
- IRIS (submittedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion)
- EUR Research Repository (Erasmus University Rotterdam) (submittedVersion)
- RePub (Erasmus University Rotterdam) (submittedVersion, other-oa)
- UNICA IRIS Institutional Research Information System (University of Cagliari) (submittedVersion)
- UnissResearch (Università degli Studi di Sassari) (submittedVersion)
- Leicester Research Archive (University of Leicester) (submittedVersion)
- Pure Amsterdam UMC (submittedVersion)
- RePub (Erasmus University Rotterdam) (submittedVersion)
- SERVAL (Université de Lausanne) (submittedVersion, other-oa)
- STM:n Hallinnonalan avoin julkaisuarkisto (Julkari) (submittedVersion)
- Funders
- National Science Foundation
- Juvenile Diabetes Research Foundation International
- Pfizer
- AstraZeneca
- GlaxoSmithKline
- Sanofi
- Wellcome Trust (068545/Z/02), GR069224, 068545, 077016/Z/05/Z, 079895)
- British Heart Foundation (PG/08/094/26019, PG/08/094)
- European Commission
- Schweizerischer Nationalfonds zur Förderung der Wissenschaftlichen Forschung (122661)
- Nederlandse Organisatie voor Wetenschappelijk Onderzoek (911-03-012, 175.010.200)
- National Institutes of Health (6r01hl087679-03, 5rl1mh083268-05)
- Canadian Institutes of Health Research
- Medical Research Council (MC_qA137934)
- National Heart, Lung, and Blood Institute (5R01 HL087679-02)
- National Institute of Mental Health (1RL1MH083268-01)
- National Human Genome Research Institute
- National Institute of Allergy and Infectious Diseases
- National Institute of Diabetes and Digestive and Kidney Diseases (U01DK062418, R01DK062370)
- National Institute of Child Health and Human Development
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic Associations and Epidemiology
- Health Sciences › Medicine › Surgery › Lipoproteins and Cardiovascular Health
- Health Sciences › Medicine › Cardiology and Cardiovascular Medicine › Lipid metabolism and disorders
- Keywords
- coronary artery disease, circulating lipids, LDL cholesterol, HDL cholesterol, triglycerides, lipid metabolism, genetic loci, single nucleotide polymorphisms, SLC39A8, PPP1R3B, AFF1, CELSR2, apolipoprotein B, apolipoprotein E, lipoprotein lipase, TRIB1, genetic risk
- MeSH terms
- Coronary Artery Disease, Humans, Cholesterol, HDL, Cholesterol, LDL, Risk Factors, Triglycerides, Genetic Variation, Polymorphism, Single Nucleotide, White People, Asian People, Lipid Metabolism, Genome-Wide Association Study
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