rs10455872

This is a intron variant variant in the LPA gene.

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GWAS Catalog Trait Associations (210)

Genome-wide significant associations (p < 5×10⁻⁸) from the NHGRI-EBI GWAS Catalog.

cholesterol in chylomicrons and extremely large VLDL measurement

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.21
p —
N 450,015
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 0.22
p 8.0e-155
N 88,329
Large GWAS
European

cholesterol to total lipids in chylomicrons and extremely large VLDL percentage

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.24
p —
N 450,015
Large GWAS
multi-ancestry

cholesterol to total lipids in large VLDL percentage

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.17
p —
N 450,015
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 0.22
p 9.0e-141
N 88,321
Large GWAS
European

cholesterol to total lipids in very large VLDL percentage

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.18
p —
N 450,015
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 0.23
p 1.0e-158
N 87,620
Large GWAS
European

cholesteryl ester measurement

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.20
p —
N 450,015
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 0.21
p 1.0e-138
N 88,329
Large GWAS
European

cholesteryl esters to total lipids in chylomicrons and extremely large VLDL percentage

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.22
p —
N 450,015
Large GWAS
multi-ancestry

cholesteryl esters to total lipids in large VLDL percentage

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.17
p —
N 450,015
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 0.23
p 9.0e-166
N 88,321
Large GWAS
European

cholesteryl esters to total lipids in very large VLDL percentage

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.19
p —
N 450,015
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 0.23
p 9.0e-172
N 87,620
Large GWAS
European

concentration of chylomicrons and extremely large VLDL particles measurement

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.22
p —
N 450,015
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 0.24
p 9.0e-179
N 88,329
Large GWAS
European

concentration of large VLDL particles measurement

Zoodsma M et al. “A genetic map of human metabolism across the allele frequency spectrum.” Nature Genetics 57(10):2445-2455 (2025)
Allele G
OR 0.15
p —
N 450,015
Large GWAS
multi-ancestry
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ClinVar annotation

Benign
1 submitter2 publications

LIPOPROTEIN(a) POLYMORPHISM

View on ClinVar →
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Research that mentions this SNP (1)

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Lipoprotein(a) plasma levels are not associated with incident microvascular complications in type 2 diabetes mellitus
AssociationN=1,850Sunny S. Singh et al.(2020)· Diabetologia

In a prospective cohort study of 1,850 individuals with type 2 diabetes (DiaGene study, 6.97 years follow-up), elevated Lp(a) plasma levels (≥30 mg/dl) and the LPA SNPs rs10455872 and rs3798220 showed no significant associations with prevalent or incident microvascular complications (retinopathy, nephropathy, neuropathy). Although the two LPA SNPs confirmed their known effects on Lp(a) levels, explaining 30% of variance jointly, this had no clinical impact on microvascular disease development in type 2 diabetes.

Traits studied:Diabetic nephropathyDiabetic neuropathyDiabetic retinopathyLipoprotein(a) levelsMicrovascular complications in type 2 diabetes
PubMedDOIMetascience Observatory

About LPA

The protein encoded by this gene is a serine proteinase that inhibits the activity of tissue-type plasminogen activator I. The encoded protein constitutes a substantial portion of lipoprotein(a) and is proteolytically cleaved, resulting in fragments that attach to atherosclerotic lesions and promote thrombogenesis. Elevated plasma levels of this protein are linked to atherosclerosis. Depending on the individual, the encoded protein contains 2-43 copies of kringle-type domains. The allele represented here contains 15 copies of the kringle-type repeats and corresponds to that found in the reference genome sequence. [provided by RefSeq, Dec 2009]

View all LPA variants →

Gene information from NCBI Gene. Variant classifications from ClinVar.

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