| Title: | Cis-epistasis at the LPA locus and risk of cardiovascular diseases |
| Journal: | Cardiovascular Research |
| Published: | 20 Apr 2021 |
| Pubmed: | https://pubmed.ncbi.nlm.nih.gov/33878186/ |
| DOI: | https://doi.org/10.1093/cvr/cvab136 |
| URL: | https://academic.oup.com/cardiovascres/article-pdf/118/4/1088/42950239/cvab136.pdf |
Publication 4508
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Abstract
AIMS: Coronary artery disease (CAD) has a strong genetic predisposition. However, despite substantial discoveries made by genome-wide association studies (GWAS), a large proportion of heritability awaits identification. Non-additive genetic effects might be responsible for part of the unaccounted genetic variance. Here, we attempted a proof-of-concept study to identify non-additive genetic effects, namely epistatic interactions, associated with CAD.</p>
METHODS AND RESULTS: We tested for epistatic interactions in 10 CAD case-control studies and UK Biobank with focus on 8068 SNPs at 56 loci with known associations with CAD risk. We identified a SNP pair located in cis at the LPA locus, rs1800769 and rs9458001, to be jointly associated with risk for CAD [odds ratio (OR) = 1.37, P = 1.07 × 10-11], peripheral arterial disease (OR = 1.22, P = 2.32 × 10-4), aortic stenosis (OR = 1.47, P = 6.95 × 10-7), hepatic lipoprotein(a) (Lp(a)) transcript levels (beta = 0.39, P = 1.41 × 10-8), and Lp(a) serum levels (beta = 0.58, P = 8.7 × 10-32), while individual SNPs displayed no association. Further exploration of the LPA locus revealed a strong dependency of these associations on a rare variant, rs140570886, that was previously associated with Lp(a) levels. We confirmed increased CAD risk for heterozygous (relative OR = 1.46, P = 9.97 × 10-32) and individuals homozygous for the minor allele (relative OR = 1.77, P = 0.09) of rs140570886. Using forward model selection, we also show that epistatic interactions between rs140570886, rs9458001, and rs1800769 modulate the effects of the rs140570886 risk allele.</p>
CONCLUSIONS: These results demonstrate the feasibility of a large-scale knowledge-based epistasis scan and provide rare evidence of an epistatic interaction in a complex human disease. We were directed to a variant (rs140570886) influencing risk through additive genetic as well as epistatic effects. In summary, this study provides deeper insights into the genetic architecture of a locus important for cardiovascular diseases.</p>
8 Keywords
- Cardiovascular Diseases
- Coronary Artery Disease
- Epistasis, Genetic
- Genetic Predisposition to Disease
- Genome-Wide Association Study
- Humans
- Lipoprotein(a)
- Polymorphism, Single Nucleotide
35 Authors
- Lingyao Zeng
- Sylvain Moser
- Nazanin Mirza-Schreiber
- Claudia Lamina
- Stefan Coassin
- Christopher P Nelson
- Tarmo Annilo
- Oscar Franzén
- Marcus E Kleber
- Salome Mack
- Till F M Andlauer
- Beibei Jiang
- Barbara Stiller
- Ling Li
- Christina Willenborg
- Matthias Munz
- Thorsten Kessler
- Adnan Kastrati
- Karl-Ludwig Laugwitz
- Jeanette Erdmann
- Susanne Moebus
- Markus M Nöthen
- Annette Peters
- Konstantin Strauch
- Martina Müller-Nurasyid
- Christian Gieger
- Thomas Meitinger
- Elisabeth Steinhagen-Thiessen
- Winfried März
- Andres Metspalu
- Johan L M Björkegren
- Nilesh J Samani
- Florian Kronenberg
- Bertram Müller-Myhsok
- Heribert Schunkert
Enabling scientific discoveries that improve human health