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  1. Article ; Online: Exploration of New Therapies for Heart Failure Targeting Age-Related Mechanisms.

    Shimizu, Ippei

    Circulation journal : official journal of the Japanese Circulation Society

    2023  Volume 88, Issue 5, Page(s) 626–630

    Abstract: Evidence indicates a role of cellular senescence and systemic insulin resistance (hyperinsulinemia) in the pathogenesis of age-related cardiovascular-metabolic disorders, including heart failure, atherosclerotic diseases, obesity, and diabetes. " ... ...

    Abstract Evidence indicates a role of cellular senescence and systemic insulin resistance (hyperinsulinemia) in the pathogenesis of age-related cardiovascular-metabolic disorders, including heart failure, atherosclerotic diseases, obesity, and diabetes. "Metabolic remodeling" is one of the keywords for aging research, and studies with brown adipose tissue have shown that maintaining the homeostasis of this organ is crucial to suppressing the progression of pathologies in obesity and heart failure. The mechanisms contributing to the synchronization of aging (sync-aging) are mysterious and interesting. "Senometabolite" or "senoprotein" are defined as circulating molecules that have causal roles in sync-aging, which requires the establishment of new concepts: age-related fibrotic disorders (A-FiDs), and senometabolite-related disorders (SRDs). Globally, researchers are active in comprehensive and conclusive studies targeting age-related circulating molecules. Recently, the senolytic approach opened a new avenue for aging research. Senolysis, mediated through a genetic/pharmacologic/vaccination approach, reversed aging and pathologies in age-related diseases. Suppression of prosenescent molecules (senocules) and senolysis, the specific depletion of senescent cells, will become next-generation therapies for cardiovascular diseases.
    MeSH term(s) Humans ; Heart Failure/metabolism ; Heart Failure/therapy ; Heart Failure/physiopathology ; Aging/metabolism ; Cellular Senescence ; Animals ; Senotherapeutics/pharmacology ; Senotherapeutics/therapeutic use ; Age Factors
    Chemical Substances Senotherapeutics
    Language English
    Publishing date 2023-07-13
    Publishing country Japan
    Document type Journal Article ; Review
    ZDB-ID 2068090-9
    ISSN 1347-4820 ; 1346-9843
    ISSN (online) 1347-4820
    ISSN 1346-9843
    DOI 10.1253/circj.CJ-23-0419
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Persistent homology-based descriptor for machine-learning potential of amorphous structures.

    Minamitani, Emi / Obayashi, Ippei / Shimizu, Koji / Watanabe, Satoshi

    The Journal of chemical physics

    2023  Volume 159, Issue 8

    Abstract: High-accuracy prediction of the physical properties of amorphous materials is challenging in condensed-matter physics. A promising method to achieve this is machine-learning potentials, which is an alternative to computationally demanding ab initio ... ...

    Abstract High-accuracy prediction of the physical properties of amorphous materials is challenging in condensed-matter physics. A promising method to achieve this is machine-learning potentials, which is an alternative to computationally demanding ab initio calculations. When applying machine-learning potentials, the construction of descriptors to represent atomic configurations is crucial. These descriptors should be invariant to symmetry operations. Handcrafted representations using a smooth overlap of atomic positions and graph neural networks (GNN) are examples of methods used for constructing symmetry-invariant descriptors. In this study, we propose a novel descriptor based on a persistence diagram (PD), a two-dimensional representation of persistent homology (PH). First, we demonstrated that the normalized two-dimensional histogram obtained from PD could predict the average energy per atom of amorphous carbon at various densities, even when using a simple model. Second, an analysis of the dimensional reduction results of the descriptor spaces revealed that PH can be used to construct descriptors with characteristics similar to those of a latent space in a GNN. These results indicate that PH is a promising method for constructing descriptors suitable for machine-learning potentials without hyperparameter tuning and deep-learning techniques.
    Language English
    Publishing date 2023-08-22
    Publishing country United States
    Document type Journal Article
    ZDB-ID 3113-6
    ISSN 1089-7690 ; 0021-9606
    ISSN (online) 1089-7690
    ISSN 0021-9606
    DOI 10.1063/5.0159349
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Capillaries as a Therapeutic Target for Heart Failure.

    Yoshida, Yohko / Shimizu, Ippei / Minamino, Tohru

    Journal of atherosclerosis and thrombosis

    2022  Volume 29, Issue 7, Page(s) 971–988

    Abstract: Prognosis of heart failure remains poor, and it is urgent to find new therapies for this critical condition. Oxygen and metabolites are delivered through capillaries; therefore, they have critical roles in the maintenance of cardiac function. With aging ... ...

    Abstract Prognosis of heart failure remains poor, and it is urgent to find new therapies for this critical condition. Oxygen and metabolites are delivered through capillaries; therefore, they have critical roles in the maintenance of cardiac function. With aging or age-related disorders, capillary density is reduced in the heart, and the mechanisms involved in these processes were reported to suppress capillarization in this organ. Studies with rodents showed capillary rarefaction has causal roles for promoting pathologies in failing hearts. Drugs used as first-line therapies for heart failure were also shown to enhance the capillary network in the heart. Recently, the approach with senolysis is attracting enthusiasm in aging research. Genetic or pharmacological approaches concluded that the specific depletion of senescent cells, senolysis, led to reverse aging phenotype. Reagents mediating senolysis are described to be senolytics, and these compounds were shown to ameliorate cardiac dysfunction together with enhancement of capillarization in heart failure models. Studies indicate maintenance of the capillary network as critical for inhibition of pathologies in heart failure.
    MeSH term(s) Aging/physiology ; Capillaries/metabolism ; Capillaries/pathology ; Coronary Vessels/pathology ; Heart ; Heart Failure/drug therapy ; Heart Failure/pathology ; Humans
    Language English
    Publishing date 2022-04-01
    Publishing country Japan
    Document type Journal Article
    ZDB-ID 2011474-6
    ISSN 1880-3873 ; 1340-3478
    ISSN (online) 1880-3873
    ISSN 1340-3478
    DOI 10.5551/jat.RV17064
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Arrhythmogenic Triggers of Atrial Fibrillation Arising From the Common Trunk of the Inferior Pulmonary Veins.

    Itoh, Nobuaki / Maruyama, Mitsunori / Tsuboi, Ippei / Nohara, Tsuyoshi / Ishihara, Shiro / Shimizu, Wataru

    Circulation reports

    2022  Volume 4, Issue 3, Page(s) 147–148

    Language English
    Publishing date 2022-01-26
    Publishing country Japan
    Document type Journal Article
    ISSN 2434-0790
    ISSN (online) 2434-0790
    DOI 10.1253/circrep.CR-21-0154
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: Cellular Senescence in Arterial Diseases.

    Shimizu, Ippei / Minamino, Tohru

    Journal of lipid and atherosclerosis

    2020  Volume 9, Issue 1, Page(s) 79–91

    Abstract: Cell-proliferation potency is limited, as cells cannot proceed through the cell cycle continually. Instead, they eventually show an irreversible arrest of proliferation, commonly referred to as cellular senescence. Following the initial discovery of this ...

    Abstract Cell-proliferation potency is limited, as cells cannot proceed through the cell cycle continually. Instead, they eventually show an irreversible arrest of proliferation, commonly referred to as cellular senescence. Following the initial discovery of this phenomenon by Hayflick et al., studies have indicated that cells are also destined to undergo aging. In addition to the irreversible termination of proliferation, senescent cells are characterized by a flattened and enlarged morphology. Senescent cells become pro-inflammatory and contribute to the initiation and maintenance of sustained chronic sterile inflammation. Aging is associated with the accumulation of senescent cells in the cardiovascular system, and in general these cells are considered to be pathogenic because they mediate vascular remodeling. Recently, genetic and pharmacological approaches have enabled researchers to eliminate senescent cells both
    Language English
    Publishing date 2020-01-08
    Publishing country Korea (South)
    Document type Journal Article ; Review
    ZDB-ID 3016001-7
    ISSN 2288-2561 ; 2287-2892
    ISSN (online) 2288-2561
    ISSN 2287-2892
    DOI 10.12997/jla.2020.9.1.79
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Article ; Online: Cereblon-mediated TRPC1 degradation regulates Ca

    Park, Nammi / Marquez, Jubert / Anh, Nguyen Thi Tuyet / Flores, Jessa / Garcia, Maria Victoria Faith / Shimizu, Ippei / Nam, Joohyun / Nilius, Bernd / Kim, Hyoung Kyu / Han, Jin

    Biochimica et biophysica acta. Molecular basis of disease

    2024  Volume 1870, Issue 3, Page(s) 167030

    MeSH term(s) Cell Line ; Calcium Channels/metabolism
    Chemical Substances Calcium Channels
    Language English
    Publishing date 2024-01-23
    Publishing country Netherlands
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 60-7
    ISSN 1879-260X ; 1879-2596 ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650 ; 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4889 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
    ISSN (online) 1879-260X ; 1879-2596 ; 1872-8006 ; 1879-2642 ; 1879-2618 ; 1879-2650
    ISSN 0006-3002 ; 0005-2728 ; 0005-2736 ; 0304-4165 ; 0167-4838 ; 1388-1981 ; 0167-4889 ; 0167-4781 ; 0304-419X ; 1570-9639 ; 0925-4439 ; 1874-9399
    DOI 10.1016/j.bbadis.2024.167030
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article ; Online: Cellular Senescence in Arterial Diseases

    Ippei Shimizu / Tohru Minamino

    Journal of Lipid and Atherosclerosis, Vol 9, Iss 1, Pp 79-

    2020  Volume 91

    Abstract: Cell-proliferation potency is limited, as cells cannot proceed through the cell cycle continually. Instead, they eventually show an irreversible arrest of proliferation, commonly referred to as cellular senescence. Following the initial discovery of this ...

    Abstract Cell-proliferation potency is limited, as cells cannot proceed through the cell cycle continually. Instead, they eventually show an irreversible arrest of proliferation, commonly referred to as cellular senescence. Following the initial discovery of this phenomenon by Hayflick et al., studies have indicated that cells are also destined to undergo aging. In addition to the irreversible termination of proliferation, senescent cells are characterized by a flattened and enlarged morphology. Senescent cells become pro-inflammatory and contribute to the initiation and maintenance of sustained chronic sterile inflammation. Aging is associated with the accumulation of senescent cells in the cardiovascular system, and in general these cells are considered to be pathogenic because they mediate vascular remodeling. Recently, genetic and pharmacological approaches have enabled researchers to eliminate senescent cells both in vitro and in vivo. The term “senolysis” is now used to refer to the depletion of senescent cells, and evidence indicates that senolysis contributes to the reversal of age-related pathogenic phenotypes without the risk of tumorigenesis. The concept of senolysis has opened new avenues in research on aging, and senolysis may be a promising therapeutic approach for combating age-related disorders, including arterial diseases.
    Keywords cellular senescence ; arterial diseases ; senolysis ; Internal medicine ; RC31-1245 ; Diseases of the circulatory (Cardiovascular) system ; RC666-701
    Subject code 610
    Language English
    Publishing date 2020-01-01T00:00:00Z
    Publisher The Korean Society of Lipid and Atherosclerosis
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  8. Article ; Online: Cellular senescence in cardiac diseases.

    Shimizu, Ippei / Minamino, Tohru

    Journal of cardiology

    2019  Volume 74, Issue 4, Page(s) 313–319

    Abstract: Replicative capacity of somatic cells is limited. It indicates that aging also develops at the cellular level, and this is described as "cellular senescence". Senescent cells become flattened, enlarged, and irreversibly lose capacity for proliferation. ... ...

    Abstract Replicative capacity of somatic cells is limited. It indicates that aging also develops at the cellular level, and this is described as "cellular senescence". Senescent cells become flattened, enlarged, and irreversibly lose capacity for proliferation. Lack of specific and conclusive markers for cellular senescence makes it difficult to comprehensively define and understand this biological process especially in vivo. Molecules including p53, p21, p16
    MeSH term(s) Aging/physiology ; Biomarkers/analysis ; Cellular Senescence/physiology ; Heart Diseases/physiopathology ; Humans ; Phenotype
    Chemical Substances Biomarkers
    Language English
    Publishing date 2019-06-12
    Publishing country Netherlands
    Document type Journal Article ; Review
    ZDB-ID 639364-0
    ISSN 1876-4738 ; 0386-2887 ; 0914-5087
    ISSN (online) 1876-4738
    ISSN 0386-2887 ; 0914-5087
    DOI 10.1016/j.jjcc.2019.05.002
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Role of circulating molecules in age-related cardiovascular and metabolic disorders.

    Hsiao, Yung Ting / Shimizu, Ippei / Yoshida, Yohko / Minamino, Tohru

    Inflammation and regeneration

    2022  Volume 42, Issue 1, Page(s) 2

    Abstract: Studies analyzing heterochronic parabiosis mice models showed that molecules in the blood of young mice rejuvenate aged mice. Therefore, blood-based therapies have become one of the therapeutic approaches to be considered for age-related diseases. Blood ... ...

    Abstract Studies analyzing heterochronic parabiosis mice models showed that molecules in the blood of young mice rejuvenate aged mice. Therefore, blood-based therapies have become one of the therapeutic approaches to be considered for age-related diseases. Blood includes numerous biologically active molecules such as proteins, metabolites, hormones, miRNAs, etc. and accumulating evidence indicates some of these change their concentration with chronological aging or age-related disorders. The level of some circulating molecules showed a negative or positive correlation with all-cause mortality, cardiovascular events, or metabolic disorders. Through analyses of clinical/translation/basic research, some molecules were focused on as therapeutic targets. One approach is the supplementation of circulating anti-aging molecules. Favorable results in preclinical studies let some molecules to be tested in humans. These showed beneficial or neutral results, and some were inconsistent. Studies with rodents and humans indicate circulating molecules can be recognized as biomarkers or therapeutic targets mediating their pro-aging or anti-aging effects. Characterization of these molecules with aging, testing their biological effects, and finding mimetics of young systemic milieu continue to be an interesting and important research topic to be explored.
    Language English
    Publishing date 2022-01-10
    Publishing country England
    Document type Journal Article ; Review
    ZDB-ID 2051471-2
    ISSN 1880-9693 ; 0389-4290
    ISSN 1880-9693 ; 0389-4290
    DOI 10.1186/s41232-021-00187-2
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  10. Book ; Online: Persistent homology-based descriptor for machine-learning potential of amorphous structures

    Minamitani, Emi / Obayashi, Ippei / Shimizu, Koji / Watanabe, Satoshi

    2022  

    Abstract: High-accuracy prediction of the physical properties of amorphous materials is challenging in condensed-matter physics. A promising method to achieve this is machine-learning potentials, which is an alternative to computationally demanding ab initio ... ...

    Abstract High-accuracy prediction of the physical properties of amorphous materials is challenging in condensed-matter physics. A promising method to achieve this is machine-learning potentials, which is an alternative to computationally demanding ab initio calculations. When applying machine-learning potentials, the construction of descriptors to represent atomic configurations is crucial. These descriptors should be invariant to symmetry operations. Handcrafted representations using a smooth overlap of atomic positions and graph neural networks (GNN) are examples of methods used for constructing symmetry-invariant descriptors. In this study, we propose a novel descriptor based on a persistence diagram (PD), a two-dimensional representation of persistent homology (PH). First, we demonstrated that the normalized two-dimensional histogram obtained from PD could predict the average energy per atom of amorphous carbon (aC) at various densities, even when using a simple model. Second, an analysis of the dimensional reduction results of the descriptor spaces revealed that PH can be used to construct descriptors with characteristics similar to those of a latent space in a GNN. These results indicate that PH is a promising method for constructing descriptors suitable for machine-learning potentials without hyperparameter tuning and deep-learning techniques.

    Comment: 24 pages, 6 figures
    Keywords Computer Science - Machine Learning ; Condensed Matter - Disordered Systems and Neural Networks ; Condensed Matter - Materials Science
    Subject code 006
    Publishing date 2022-06-27
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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