1. Rare variant contribution to the heritability of coronary artery disease.
- Author
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Rocheleau, Ghislain, Clarke, Shoa, Auguste, Gaëlle, Hasbani, Natalie, Morrison, Alanna, Heath, Adam, Bielak, Lawrence, Iyer, Kruthika, Young, Erica, Stitziel, Nathan, Jun, Goo, Laurie, Cecelia, Broome, Jai, Khan, Alyna, Arnett, Donna, Becker, Lewis, Bis, Joshua, Boerwinkle, Eric, Bowden, Donald, Carson, April, Ellinor, Patrick, Fornage, Myriam, Franceschini, Nora, Freedman, Barry, Heard-Costa, Nancy, Hou, Lifang, Chen, Yii-Der, Kenny, Eimear, Kooperberg, Charles, Kral, Brian, Loos, Ruth, Lutz, Sharon, Manson, JoAnn, Martin, Lisa, Mitchell, Braxton, Nassir, Rami, Palmer, Nicholette, Post, Wendy, Preuss, Michael, Psaty, Bruce, Raffield, Laura, Regan, Elizabeth, Rich, Stephen, Smith, Jennifer, Taylor, Kent, Yanek, Lisa, Young, Kendra, Hilliard, Austin, Tcheandjieu, Catherine, Peyser, Patricia, Vasan, Ramachandran, Rotter, Jerome, Miller, Clint, Assimes, Themistocles, de Vries, Paul, and Do, Ron
- Subjects
Humans ,Coronary Artery Disease ,Genetic Predisposition to Disease ,Linkage Disequilibrium ,Polymorphism ,Single Nucleotide ,Male ,Female ,Gene Frequency ,Genome-Wide Association Study ,White People ,Case-Control Studies ,Whole Genome Sequencing ,Genetic Variation ,Middle Aged - Abstract
Whole genome sequences (WGS) enable discovery of rare variants which may contribute to missing heritability of coronary artery disease (CAD). To measure their contribution, we apply the GREML-LDMS-I approach to WGS of 4949 cases and 17,494 controls of European ancestry from the NHLBI TOPMed program. We estimate CAD heritability at 34.3% assuming a prevalence of 8.2%. Ultra-rare (minor allele frequency ≤ 0.1%) variants with low linkage disequilibrium (LD) score contribute ~50% of the heritability. We also investigate CAD heritability enrichment using a diverse set of functional annotations: i) constraint; ii) predicted protein-altering impact; iii) cis-regulatory elements from a cell-specific chromatin atlas of the human coronary; and iv) annotation principal components representing a wide range of functional processes. We observe marked enrichment of CAD heritability for most functional annotations. These results reveal the predominant role of ultra-rare variants in low LD on the heritability of CAD. Moreover, they highlight several functional processes including cell type-specific regulatory mechanisms as key drivers of CAD genetic risk.
- Published
- 2024