Cardiovascular Disease: From Genetics to Therapeutics

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Human Genomics and Genetic Diseases".

Deadline for manuscript submissions: closed (25 November 2024) | Viewed by 1831

Special Issue Editor


E-Mail Website
Guest Editor
1. The Broad Institute of Harvard & MIT, Cambridge, MA, USA
2. Brigham and Women's Hospital, Boston, MA, USA
Interests: coronary artery disease; Perturb-seq; variant to function; endothelial cells; epigenetics; genomics

Special Issue Information

Dear Colleagues,

Human genetic studies, including common and rare variant association studies (GWAS, RVAS), phenotypic analyses in large biobanks (PheWAS) and other “omics” approaches (QTL, TWAS, and single cell studies), have identified thousands of genetic risk signals associated with cardiovascular disease and related phenotypes. These genetic data hold great potential for the discovery of novel disease mechanisms, drug targets, and therapeutic approaches. For example, most of the over 200 loci associated with coronary artery disease are not associated with circulating cholesterol or blood pressure (the two major risk factors for which we have effective therapeutics), suggesting the presence of additional disease mechanisms that are not currently being therapeutically targeted.

Discovering these new disease mechanisms, however, remains challenging because ~80% of likely causal disease variants are in non-coding regions of the genome. These variants likely modify the activities of regulatory elements, such as enhancers, that can each regulate multiple target genes, at great distances, and which can be highly cell type-specific. Moreover, determining the causal noncoding variant within a linkage disequilibrium block is difficult, relative to coding variants, because of limitations in our predictive tools. Even for coding variants, it remains non-trivial to understand their connections to disease. Accordingly, it has been extremely difficult to determine the target gene, relevant cell type, and mechanism for the vast majority of disease-associated loci.

Cardiovascular disease remains the leading cause of death worldwide, and there is a great unmet need for novel classes of therapeutics that might be discovered if we could unlock the ever-increasing wealth of information from human genetic studies. The challenge for the field, then, is to find ways to accelerate variant-to-function discovery for cardiovascular disease. This will require the development of better computational models to predict variant functions and higher throughput approaches to link variants to molecular and cellular phenotypes, together with an intensified effort to discover disease mechanisms for individual causal genes and pathways and to develop new therapeutics to target them.

This Special Issue cordially invites novel studies and review articles that address all aspects of genetics-to-therapeutics discovery for cardiovascular disease, including new genetic analyses/meta-analyses, predictive modeling, high-throughput variant-to-function approaches, single cell studies that identify pathogenic cell types or transcriptomic signatures, dissection of variant-to-disease mechanisms at individual loci, and efforts to develop new therapeutics targeting known or novel causal genes and pathways.

Dr. Gavin Schnitzler
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Genes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 2600 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • cardiovascular disease
  • genetics
  • variant to function
  • causal genes
  • disease mechanism
  • drug discovery

Benefits of Publishing in a Special Issue

  • Ease of navigation: Grouping papers by topic helps scholars navigate broad scope journals more efficiently.
  • Greater discoverability: Special Issues support the reach and impact of scientific research. Articles in Special Issues are more discoverable and cited more frequently.
  • Expansion of research network: Special Issues facilitate connections among authors, fostering scientific collaborations.
  • External promotion: Articles in Special Issues are often promoted through the journal's social media, increasing their visibility.
  • e-Book format: Special Issues with more than 10 articles can be published as dedicated e-books, ensuring wide and rapid dissemination.

Further information on MDPI's Special Issue polices can be found here.

Published Papers (2 papers)

Order results
Result details
Select all
Export citation of selected articles as:

Research

15 pages, 2667 KiB  
Article
Missing Regulation Between Genetic Association and Transcriptional Abundance for Hypercholesterolemia Genes
by Aaron Hakim, Noah J. Connally, Gavin R. Schnitzler, Michael H. Cho, Z. Gordon Jiang, Shamil R. Sunyaev and Rajat M. Gupta
Genes 2025, 16(1), 84; https://doi.org/10.3390/genes16010084 - 15 Jan 2025
Viewed by 599
Abstract
Background: Low-density lipoprotein cholesterol (LDL-C) is a well-established risk factor for cardiovascular disease, and it plays a causal role in the development of atherosclerosis. Genome-wide association studies (GWASs) have successfully identified hundreds of genetic variants associated with LDL-C. Most of these risk loci [...] Read more.
Background: Low-density lipoprotein cholesterol (LDL-C) is a well-established risk factor for cardiovascular disease, and it plays a causal role in the development of atherosclerosis. Genome-wide association studies (GWASs) have successfully identified hundreds of genetic variants associated with LDL-C. Most of these risk loci fall in non-coding regions of the genome, and it is unclear how these non-coding variants affect circulating lipid levels. One hypothesis is that genetically mediated variation in transcript abundance, detected via the analysis of expressed quantitative trait loci (eQTLs), is key to the biologic function of causal variants. Here, we investigate the hypothesis that non-coding GWAS risk variants affect the homeostatic expression of a nearby putatively causal gene for serum LDL-C levels. Methods: We establish a set of twenty-one expert-curated and validated genes implicated in hypercholesterolemia via dose-dependent pharmacologic modulation in human adults, for which the relevant tissue type has been established. We show that the expression of these LDL-C genes is impacted by eQTLs in relevant tissues and that there are significant genomic-risk loci in LDL-GWAS near these causal genes. We evaluate, using statistical colocalization, whether a single variant or set of variants in each genetic locus is responsible for the GWAS and eQTL signals. Results: Genome-wide association study results for serum LDL-C levels demonstrate that the 402 identified genomic-risk loci for LDL-C are highly enriched for known causal genes for LDL-C (OR 527, 95% CI 126–5376, p < 2.2 × 10−16). However, we find limited evidence for colocalization between GWAS signals near validated hypercholesterolemia genes and eQTLs in relevant tissues (colocalization rate of 26% at a locus-level colocalization probability > 50%). Conclusions: Our results highlight the complexity of genetic regulatory effects for causal hypercholesterolemia genes; we suggest that context-responsive eQTLs may explain the effects of non-coding GWAS hits that do not overlap with standard eQTLs. Full article
(This article belongs to the Special Issue Cardiovascular Disease: From Genetics to Therapeutics)
Show Figures

Figure 1

19 pages, 7309 KiB  
Article
Side- and Disease-Dependent Changes in Human Aortic Valve Cell Population and Transcriptomic Heterogeneity Determined by Single-Cell RNA Sequencing
by Nicolas Villa-Roel, Christian Park, Aitor Andueza, Kyung In Baek, Ally Su, Mark C. Blaser, Bradley G. Leshnower, Ajit Yoganathan, Elena Aikawa and Hanjoong Jo
Genes 2024, 15(12), 1623; https://doi.org/10.3390/genes15121623 - 19 Dec 2024
Viewed by 862
Abstract
Background: Calcific aortic valve disease (CAVD) is a highly prevalent disease, especially in the elderly population, but there are no effective drug therapies other than aortic valve repair or replacement. CAVD develops preferentially on the fibrosa side, while the ventricularis side remains relatively [...] Read more.
Background: Calcific aortic valve disease (CAVD) is a highly prevalent disease, especially in the elderly population, but there are no effective drug therapies other than aortic valve repair or replacement. CAVD develops preferentially on the fibrosa side, while the ventricularis side remains relatively spared through unknown mechanisms. We hypothesized that the fibrosa is prone to the disease due to side-dependent differences in transcriptomic patterns and cell phenotypes. Methods: To test this hypothesis, we performed single-cell RNA sequencing using a new method to collect endothelial-enriched samples independently from the fibrosa and ventricularis sides of freshly obtained human aortic valve leaflets from five donors, ranging from non-diseased to fibrocalcific stages. Results: From the 82,356 aortic valve cells analyzed, we found 27 cell clusters, including seven valvular endothelial cell (VEC), nine valvular interstitial cell (VIC), and seven immune, three transitional, and one stromal cell population. We identified several side-dependent VEC subtypes with unique gene expression patterns. Homeostatic VIC clusters were abundant in non-diseased tissues, while VICs enriched with fibrocalcific genes and pathways were more prevalent in diseased leaflets. Furthermore, homeostatic macrophage (MΦ) clusters decreased while inflammatory MΦ and T-cell clusters increased with disease progression. A foamy MΦ cluster was increased in the fibrosa of mildly diseased tissues. Some side-dependent VEC clusters represented non-diseased, protective phenotypes, while others were CAVD-associated and were characterized by genes enriched in pathways of inflammation, endothelial–mesenchymal transition, apoptosis, proliferation, and fibrosis. Interestingly, we found several activator protein-1 (AP-1)-related transcription factors (FOSB, FOS, JUN, JUNB) and EGR1 to be upregulated in the fibrosa and diseased aortic valve leaflets. Conclusions: Our results showed that VECs are highly heterogeneous in a side- and CAVD-dependent manner. Unique VEC clusters and their differentially regulated genes and pathways found in the fibrosa of diseased tissues may represent novel pathogenic mechanisms and potential therapeutic targets. Full article
(This article belongs to the Special Issue Cardiovascular Disease: From Genetics to Therapeutics)
Show Figures

Graphical abstract

Back to TopTop