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  1. Article ; Online: Multiomic Analysis and CRISPR Perturbation Screens Identify Endothelial Cell Programs and Novel Therapeutic Targets for Coronary Artery Disease.

    Gupta, Rajat M / Schnitzler, Gavin R / Fang, Shi / Lee-Kim, Vivian S / Barry, Aurelie

    Arteriosclerosis, thrombosis, and vascular biology

    2023  Volume 43, Issue 5, Page(s) 600–608

    Abstract: Endothelial cells (EC) are an important mediator of atherosclerosis and vascular disease. Their exposure to atherogenic risk factors such as hypertension and serum cholesterol leads to endothelial dysfunction and many disease-associated processes. ... ...

    Abstract Endothelial cells (EC) are an important mediator of atherosclerosis and vascular disease. Their exposure to atherogenic risk factors such as hypertension and serum cholesterol leads to endothelial dysfunction and many disease-associated processes. Identifying which of these multiple EC functions is causally related to disease risk has been challenging. There is evidence from in vivo models and human sequencing studies that dysregulation of nitric oxide production directly affects risk of coronary artery disease. Human genetics can help prioritize the other EC functions with causal relationships because germline mutations are acquired at birth and serve as a randomized test of which pathways affect disease risk. Though several coronary artery disease risk variants have been linked to EC function, this process has been slow and laborious. Unbiased analyses of EC dysfunction using multiomic approaches promise to identify the causal genetic mechanisms responsible for vascular disease. Here, we review the data from genomic, epigenomic, and transcriptomic studies that prioritize EC-specific causal pathways. New methods that CRISPR (clustered regularly interspaced short palindromic repeats) perturbation technology with genomic, epigenomic, and transcriptomic analysis promise to speed up the characterization of disease-associated genetic variation. We summarize several recent studies in ECs which use high-throughput genetic perturbation to identify disease-relevant pathways and novel mechanisms of disease. These genetically validated pathways can accelerate the identification of drug targets for the prevention and treatment of atherosclerosis.
    MeSH term(s) Infant, Newborn ; Humans ; Coronary Artery Disease/genetics ; Coronary Artery Disease/therapy ; Coronary Artery Disease/metabolism ; Endothelial Cells/metabolism ; Clustered Regularly Interspaced Short Palindromic Repeats ; Multiomics ; Atherosclerosis/genetics ; Atherosclerosis/therapy ; Atherosclerosis/metabolism
    Language English
    Publishing date 2023-03-30
    Publishing country United States
    Document type Journal Article ; Review ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 1221433-4
    ISSN 1524-4636 ; 1079-5642
    ISSN (online) 1524-4636
    ISSN 1079-5642
    DOI 10.1161/ATVBAHA.123.318328
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: The March of Monocytes in Atherosclerosis: One Cell at a Time.

    Gupta, Rajat M / Lee-Kim, Vivian S / Libby, Peter

    Circulation research

    2020  Volume 126, Issue 10, Page(s) 1324–1326

    MeSH term(s) Atherosclerosis ; Humans ; Longevity ; Macrophages ; Monocytes ; RNA
    Chemical Substances RNA (63231-63-0)
    Language English
    Publishing date 2020-05-07
    Publishing country United States
    Document type Editorial ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Comment
    ZDB-ID 80100-8
    ISSN 1524-4571 ; 0009-7330 ; 0931-6876
    ISSN (online) 1524-4571
    ISSN 0009-7330 ; 0931-6876
    DOI 10.1161/CIRCRESAHA.120.316981
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: CRISPR-Cas9 Genome Editing of Primary Human Vascular Cells In Vitro.

    Atri, Deepak S / Lee-Kim, Vivian S / Vellarikkal, Shamsudheen K / Sias-Garcia, Oscar / Yanamandala, Mounica / Schniztler, Gavin R / Gupta, Rajat M

    Current protocols

    2021  Volume 1, Issue 11, Page(s) e291

    Abstract: Genome editing of primary human cells with CRISPR-Cas9 is a powerful tool to study gene function. For many cell types, there are efficient protocols for editing with optimized plasmids for Cas9 and sgRNA expression. Vascular cells, however, remain ... ...

    Abstract Genome editing of primary human cells with CRISPR-Cas9 is a powerful tool to study gene function. For many cell types, there are efficient protocols for editing with optimized plasmids for Cas9 and sgRNA expression. Vascular cells, however, remain refractory to plasmid-based delivery of CRISPR machinery for in vitro genome editing due to low transfection efficiency, poor expression of the Cas9 machinery, and toxic effects of the selection antibiotics. Here, we describe a method for high-efficiency editing of primary human vascular cells in vitro using nucleofection for direct delivery of sgRNA:Cas9-NLS ribonucleoprotein complexes. This method is more rapid and its high editing efficiency eliminates the need for additional selection steps. The edited cells can be employed in diverse applications, such as gene expression measurement or functional assays to assess various genetic perturbation effects in vitro. This method proves effective in vascular cells that are refractory to standard genome manipulation techniques using viral plasmid delivery. We anticipate that this technique will be applied to other non-vascular cell types that face similar barriers to efficient genome editing. © 2021 Wiley Periodicals LLC. Basic Protocol: CRISPR-Cas9 genome editing of primary human vascular cells in vitro.
    MeSH term(s) CRISPR-Cas Systems/genetics ; Gene Editing ; Gene Expression ; Humans ; Plasmids ; Transfection
    Language English
    Publishing date 2021-11-08
    Publishing country United States
    Document type Journal Article
    ISSN 2691-1299
    ISSN (online) 2691-1299
    DOI 10.1002/cpz1.291
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Convergence of coronary artery disease genes onto endothelial cell programs.

    Schnitzler, Gavin R / Kang, Helen / Fang, Shi / Angom, Ramcharan S / Lee-Kim, Vivian S / Ma, X Rosa / Zhou, Ronghao / Zeng, Tony / Guo, Katherine / Taylor, Martin S / Vellarikkal, Shamsudheen K / Barry, Aurelie E / Sias-Garcia, Oscar / Bloemendal, Alex / Munson, Glen / Guckelberger, Philine / Nguyen, Tung H / Bergman, Drew T / Hinshaw, Stephen /
    Cheng, Nathan / Cleary, Brian / Aragam, Krishna / Lander, Eric S / Finucane, Hilary K / Mukhopadhyay, Debabrata / Gupta, Rajat M / Engreitz, Jesse M

    Nature

    2024  Volume 626, Issue 8000, Page(s) 799–807

    Abstract: Linking variants from genome-wide association studies (GWAS) to underlying mechanisms of disease remains a ... ...

    Abstract Linking variants from genome-wide association studies (GWAS) to underlying mechanisms of disease remains a challenge
    MeSH term(s) Humans ; Coronary Artery Disease/genetics ; Coronary Artery Disease/pathology ; Endothelial Cells/metabolism ; Endothelial Cells/pathology ; Genetic Predisposition to Disease/genetics ; Genome-Wide Association Study ; Hemangioma, Cavernous, Central Nervous System/genetics ; Hemangioma, Cavernous, Central Nervous System/pathology ; Polymorphism, Single Nucleotide ; Epigenomics ; Signal Transduction/genetics ; Multifactorial Inheritance
    Chemical Substances CCM2 protein, human ; TLNRD1 protein, human
    Language English
    Publishing date 2024-02-07
    Publishing country England
    Document type Journal Article
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/s41586-024-07022-x
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article ; Online: Rare, Damaging DNA Variants in

    Wang, Minxian / Lee-Kim, Vivian S / Atri, Deepak S / Elowe, Nadine H / Yu, John / Garvie, Colin W / Won, Hong-Hee / Hadaya, Joseph E / MacDonald, Bryan T / Trindade, Kevin / Melander, Olle / Rader, Daniel J / Natarajan, Pradeep / Kathiresan, Sekar / Kaushik, Virendar K / Khera, Amit V / Gupta, Rajat M

    Circulation. Genomic and precision medicine

    2021  Volume 14, Issue 5, Page(s) e003399

    Abstract: Background: Corin is a protease expressed in cardiomyocytes that plays a key role in salt handling and intravascular volume homeostasis via activation of natriuretic peptides. It is unknown if Corin loss-of-function (LOF) is causally associated with ... ...

    Abstract Background: Corin is a protease expressed in cardiomyocytes that plays a key role in salt handling and intravascular volume homeostasis via activation of natriuretic peptides. It is unknown if Corin loss-of-function (LOF) is causally associated with risk of coronary artery disease (CAD).
    Methods: We analyzed all coding
    Results: We observed LOF variants in
    Conclusions: Functional testing of missense mutations improved the accuracy of rare variant association analysis. Despite compelling pathophysiology and a preliminary observation suggesting association, we observed no relationship between rare damaging variants in
    MeSH term(s) Adult ; Coronary Artery Disease/epidemiology ; Coronary Artery Disease/genetics ; Female ; Genomics ; Humans ; Italy/epidemiology ; Male ; Mutation, Missense ; Risk Factors ; Sequence Analysis, DNA ; Serine Endopeptidases/genetics
    Chemical Substances CORIN protein, human (EC 3.4.21.-) ; Serine Endopeptidases (EC 3.4.21.-)
    Language English
    Publishing date 2021-10-01
    Publishing country United States
    Document type Clinical Trial ; Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ISSN 2574-8300
    ISSN (online) 2574-8300
    DOI 10.1161/CIRCGEN.121.003399
    Database MEDical Literature Analysis and Retrieval System OnLINE

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