rs9989419
▶GWAS Catalog Trait Associations (17)
Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.
GWAS Catalog Trait Associations (17)
Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.
apolipoprotein A 1 measurement
Richardson TG et al. “Evaluating the relationship between circulating lipoprotein lipids and apolipoproteins with risk of coronary heart disease: A multivariable Mendelian randomisation analysis.” Plos Medicine 17(3):e1003062 (2020)
Allele A
OR 0.11
p —
N 393,193
Large GWAS
European
high density lipoprotein cholesterol measurement
Richardson TG et al. “Evaluating the relationship between circulating lipoprotein lipids and apolipoproteins with risk of coronary heart disease: A multivariable Mendelian randomisation analysis.” Plos Medicine 17(3):e1003062 (2020)
Allele G
OR 0.14
p —
N 403,943
Large GWAS
European
Verma A et al. “Diversity and scale: Genetic architecture of 2068 traits in the VA Million Veteran Program.” Science (new York, N.y.) 385(6706):eadj1182 (2024)
Allele G
OR 0.14
p 9.9e-324
N 578,125
Major Consortium StudyLarge GWAS
multi-ancestry
Bentley AR et al. “Multi-ancestry genome-wide gene-smoking interaction study of 387,272 individuals identifies new loci associated with serum lipids.” Nature Genetics 51(4):636-648 (2019)
Allele G
OR 0.03
p 8.0e-133
N 133,824
Large GWAS
multi-ancestry
Hoffmann TJ et al. “A large electronic-health-record-based genome-wide study of serum lipids.” Nature Genetics 50(3):401-413 (2018)
Allele G
OR 0.13
p 4.0e-251
N 94,674
Large GWAS
multi-ancestry
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele G
OR 0.14
p 1.0e-200
N 88,329
Large GWAS
European
de Vries PS et al. “Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions.” American Journal of Epidemiology 188(6):1033-1054 (2019)
Allele G
OR —
β 0.014
p 2.0e-12
N 71,394
Large GWAS
multi-ancestry
Kulminski AM et al. “Quantitative and Qualitative Role of Antagonistic Heterogeneity in Genetics of Blood Lipids.” The Journals of Gerontology. Series A, Biological Sciences and Medical Sciences 75(10):1811-1819 (2020)
Allele G
OR 2.04
p 2.0e-39
N 29,902
Large GWAS
European
Huang QQ et al. “Transferability of genetic loci and polygenic scores for cardiometabolic traits in British Pakistani and Bangladeshi individuals.” Nature Communications 13(1):4664 (2022)
Allele G
OR 0.11
p 5.0e-22
N 22,000
Large GWAS
South Asian
Waterworth DM et al. “Genetic variants influencing circulating lipid levels and risk of coronary artery disease.” Arteriosclerosis, Thrombosis, and Vascular Biology 30(11):2264-76 (2010)
Allele G
OR 0.04
p 1.0e-32
N 17,723
Large GWAS
multi-ancestry
Willer CJ et al. “Newly identified loci that influence lipid concentrations and risk of coronary artery disease.” Nature Genetics 40(2):161-9 (2008)
Allele G
OR 1.72
p 3.0e-31
N 8,656
Large GWAS
European
Heid IM et al. “Genome-wide association analysis of high-density lipoprotein cholesterol in the population-based KORA study sheds new light on intergenic regions.” Circulation. Cardiovascular Genetics 1(1):10-20 (2008)
Allele G
OR 2.66
p 9.0e-27
N 4,274
Large GWAS
European
Bandesh K et al. “Genome-wide association study of blood lipids in Indians confirms universality of established variants.” Journal of Human Genetics 64(6):573-587 (2019)
Allele G
OR 1.51
p 4.0e-11
N 1,036
Large GWAS
multi-ancestry
Keller M et al. “THOC5: a novel gene involved in HDL-cholesterol metabolism.” Journal of Lipid Research 54(11):3170-6 (2013)
Allele G
OR 6.57
p 5.0e-11
N 839
Small GWAS
European
cholesterol in large HDL measurement
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele A
OR 0.14
p 1.0e-200
N 88,329
Large GWAS
European
cholesteryl ester measurement
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele A
OR 0.14
p 1.0e-200
N 88,329
Large GWAS
European
free cholesterol to total lipids in medium HDL percentage
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele A
OR 0.14
p 1.0e-200
N 88,329
Large GWAS
European
free cholesterol to total lipids in very large HDL percentage
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele A
OR 0.13
p 1.0e-200
N 88,307
Large GWAS
European
phospholipids in large HDL measurement
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele A
OR 0.13
p 1.0e-200
N 88,329
Large GWAS
European
total lipids in large HDL
Davyson E et al. “Metabolomic Investigation of Major Depressive Disorder Identifies a Potentially Causal Association With Polyunsaturated Fatty Acids.” Biological Psychiatry 94(8):630-639 (2023)
Allele A
OR 0.13
p 1.0e-200
N 88,329
Large GWAS
European
low density lipoprotein cholesterol measurement, alcohol drinking
de Vries PS et al. “Multiancestry Genome-Wide Association Study of Lipid Levels Incorporating Gene-Alcohol Interactions.” American Journal of Epidemiology 188(6):1033-1054 (2019)
Allele G
OR —
p 4.0e-18
N 127,326
Large GWAS
multi-ancestry
low density lipoprotein cholesterol measurement
Schoeler T et al. “Participation bias in the UK Biobank distorts genetic associations and downstream analyses.” Nature Human Behaviour 7(7):1216-1227 (2023)
Allele A
OR 0.02
p 4.0e-13
N 269,545
Major Consortium StudyLarge GWAS
European
▶Research that mentions this SNP (1)
▶Serum vitamins A and E as modifiers of lipid trait genetics in the National Health and Nutrition Examination Surveys as part of the Population Architecture using Genomics and Epidemiology (PAGE) studyAssociationN=5,576Logan Dumitrescu et al.(2012)· Human Genetics
Serum vitamins A and E as modifiers of lipid trait genetics in the National Health and Nutrition Examination Surveys as part of the Population Architecture using Genomics and Epidemiology (PAGE) study
AssociationN=5,576Logan Dumitrescu et al.(2012)· Human Genetics
This study investigated gene-environment interactions between 23 GWAS-identified lipid-associated SNPs and serum vitamins A and E in the National Health and Nutrition Examination Surveys (NHANES), including 5,576 participants across three racial/ethnic groups. Nine significant interactions were identified, with the most significant being APOB rs693×vitamin E associated with LDL-C in Mexican Americans (p=8.94×10⁻⁷). These nine interactions explained only 0.35-1.28% of variation in lipid traits, suggesting that gene-environment interactions account for modest proportions of the missing heritability in lipid metabolism.
Traits studied:HDL-C (High-Density Lipoprotein Cholesterol)LDL-C (Low-Density Lipoprotein Cholesterol)Triglycerides
This variant is in our database but has no known associations or PRS memberships yet.
Gene information from NCBI Gene. Variant classifications from ClinVar.
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