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  1. Book: Handbook of Computational Neurodegeneration

    Vlamos, Panagiotis / Tarnanas, Ioannis / Kotsireas, Ilias S.

    2024  

    Abstract: The Handbook of Computational Neurodegeneration provides a comprehensive overview of the field and thus bridges the gap between standard textbooks of research on neurodegeneration and dispersed publications for specialists that have a narrowed focus on ... ...

    Author's details Dr. Panayiotis Vlamos, Professor, Ionian University, Greece, Director of Bioinformatics and Human Electrophysiology Lab (BiHELab). Dr. Ilias S. Kotsireas, Professor, Wilfrid Laurier University, Waterloo, Ontario, Canada; and Director, Research Center on Computational Biomarkers. Dr. Ioannis Tarnanas Senior Research Fellow ETH Health-IS Lab | Global Brain Health Institute (GBHI) Founder Altoida AG Lucerne, Switzerland
    Abstract The Handbook of Computational Neurodegeneration provides a comprehensive overview of the field and thus bridges the gap between standard textbooks of research on neurodegeneration and dispersed publications for specialists that have a narrowed focus on computational methods to study this complicated process. -- -- The handbook reviews the central issues and methodological approaches related to the field for which the reader pursues a thorough overview. It also conveys more advanced knowledge...
    Keywords Lehrbuch ; ISRN020 ; MHMC090 ; FINT060 ; NBII010 ; MHMA060 ; FINSA05 ; Diseasemodelling ; informationprocessing ; Digitalhealth ; datamining ; Metaheuristics ; high-performancecomputing ; Mathematicalmodelling ; neurodegeneration ; disease modelling ; information processing ; digital health ; data mining ; metaheuristics ; high-performance computing ; mathematical modelling
    Language English
    Size 1064 p.
    Edition 1
    Publisher Springer International Publishing
    Document type Book
    Note PDA Manuell_22
    Format 160 x 241 x 59
    ISBN 9783319759210 ; 3319759213
    Database PDA

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  2. Article: Preface selected revised papers from the LION 14 conference.

    Kotsireas, Ilias S / Pardalos, Panos M

    Annals of mathematics and artificial intelligence

    2022  Volume 90, Issue 7-9, Page(s) 677

    Language English
    Publishing date 2022-07-30
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 2002961-5
    ISSN 1573-7470 ; 1012-2443
    ISSN (online) 1573-7470
    ISSN 1012-2443
    DOI 10.1007/s10472-022-09808-z
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  3. Article: Preface: Selected revised papers from the LION 15 conference.

    Kotsireas, Ilias S / Pardalos, Panos M / Simos, Dimitris E

    Annals of mathematics and artificial intelligence

    2023  Volume 91, Issue 2-3, Page(s) 107–108

    Language English
    Publishing date 2023-03-10
    Publishing country Netherlands
    Document type Editorial
    ZDB-ID 2002961-5
    ISSN 1573-7470 ; 1012-2443
    ISSN (online) 1573-7470
    ISSN 1012-2443
    DOI 10.1007/s10472-023-09838-1
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  4. Article: Detecting Common Pathways and Key Molecules of Neurodegenerative Diseases from the Topology of Molecular Networks.

    Vrahatis, Aristidis G / Kotsireas, Ilias S / Vlamos, Panayiotis

    Advances in experimental medicine and biology

    2020  Volume 1194, Page(s) 409–421

    Abstract: MotivationNeurodegenerative diseases (NDs), including amyotrophic lateral sclerosis, Parkinson's disease, Alzheimer's disease, and Huntington's disease, occur as a result of neurodegenerative processes. Thus, it has been increasingly appreciated that ... ...

    Abstract MotivationNeurodegenerative diseases (NDs), including amyotrophic lateral sclerosis, Parkinson's disease, Alzheimer's disease, and Huntington's disease, occur as a result of neurodegenerative processes. Thus, it has been increasingly appreciated that many neurodegenerative conditions overlap at multiple levels. However, traditional clinicopathological correlation approaches to better classify a disease have met with limited success. Discovering this overlap offers hope for therapeutic advances that could ameliorate many ND simultaneously. In parallel, in the last decade, systems biology approaches have become a reliable choice in complex disease analysis for gaining more delicate biological insights and have enabled the comprehension of the higher order functions of the biological systems.ResultsToward this orientation, we developed a systems biology approach for the identification of common links and pathways of ND, based on well-established and novel topological and functional measures. For this purpose, a molecular pathway network was constructed, using molecular interactions and relations of four main neurodegenerative diseases (Alzheimer's disease, Parkinson's disease, amyotrophic lateral sclerosis, and Huntington's disease). Our analysis captured the overlapped subregions forming molecular subpathways fully enriched in these four NDs. Also, it exported molecules that act as bridges, hubs, and key players for neurodegeneration concerning either their topology or their functional role.ConclusionUnderstanding these common links and central topologies under the perspective of systems biology and network theory and greater insights are provided to uncover the complex neurodegeneration processes.
    MeSH term(s) Humans ; Neural Pathways/pathology ; Neurodegenerative Diseases/diagnosis ; Neurodegenerative Diseases/physiopathology ; Systems Biology
    Language English
    Publishing date 2020-05-27
    Publishing country United States
    Document type Journal Article
    ISSN 2214-8019 ; 0065-2598
    ISSN (online) 2214-8019
    ISSN 0065-2598
    DOI 10.1007/978-3-030-32622-7_38
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  5. Article: A Systems Biology Approach for the Identification of Active Molecular Pathways During the Progression of Alzheimer's Disease.

    Vrahatis, Aristidis G / Kotsireas, Ilias S / Vlamos, Panayiotis

    Advances in experimental medicine and biology

    2020  Volume 1194, Page(s) 303–314

    Abstract: Motivation: In the last years, systems-level network-based approaches have gained ground in the research field of systems biology. These approaches are based on the analysis of high-throughput sequencing studies, which are rapidly increasing year by ... ...

    Abstract Motivation: In the last years, systems-level network-based approaches have gained ground in the research field of systems biology. These approaches are based on the analysis of high-throughput sequencing studies, which are rapidly increasing year by year. Nowadays, the single-cell RNA-sequencing, an optimized next-generation sequencing (NGS) technology that offers a better understanding of the function of an individual cell in the context of its microenvironment, prevails.
    Results: Toward this direction, a method is developed in which active molecular subpathways are recorded during the time evolution of the disease under study. This method operates for expression profiling by high-throughput sequencing data. Its capability is based on capturing the temporal changes of local gene communities that form a disease-perturbed subpathway. The aforementioned methods are applied to real data from a recent study that uses single-cell RNA-sequencing data related with the progression of neurodegeneration. More specific, microglia cells were isolated from the hippocampus of a mouse model with Alzheimer's disease-like phenotypes and severe neurodegeneration and of control mice at multiple time points during progression of neurodegeneration. Our analysis offers a different view for neurodegeneration progression under the perspective of systems biology.
    Conclusion: Our approach into the molecular perspective using a temporal tracking of active pathways in neurodegeneration at single-cell resolution may offer new insights for designing new efficient strategies to treat Alzheimer's and other neurodegenerative diseases.
    MeSH term(s) Alzheimer Disease/physiopathology ; Animals ; Disease Models, Animal ; Disease Progression ; Humans ; Mice ; Microglia/pathology ; Sequence Analysis, RNA ; Single-Cell Analysis/standards ; Systems Biology/methods
    Language English
    Publishing date 2020-05-27
    Publishing country United States
    Document type Journal Article
    ISSN 2214-8019 ; 0065-2598
    ISSN (online) 2214-8019
    ISSN 0065-2598
    DOI 10.1007/978-3-030-32622-7_28
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  6. Book: Advances in applied mathematics, modeling, and computational science

    Kotsireas, Ilias S / Melnik, Roderick

    (Fields Institute communications ; 66)

    2013  

    Author's details Roderick Melnik; Ilias Kotsireas, eds
    Series title Fields Institute communications ; 66
    Keywords Computer science/Mathematics ; Mathematical models ; Mathematics
    Language English
    Size IX, 242 S., Ill., graph. Darst., 24 cm
    Publisher Springer u.a.
    Publishing place New York ;Heidelberg u.a.
    Document type Book
    Note Literaturangaben
    ISBN 9781461453888 ; 9781461453895 ; 1461453887 ; 1461453895
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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  7. Book ; Online: Survey of Methods for Solving Systems of Nonlinear Equations, Part II

    Kotsireas, Ilias S. / Pardalos, Panos M. / Semenov, Alexander / Trevena, William T. / Vrahatis, Michael N.

    Optimization Based Approaches

    2022  

    Abstract: This paper presents a comprehensive survey of methods which can be utilized to search for solutions to systems of nonlinear equations (SNEs). Our objectives with this survey are to synthesize pertinent literature in this field by presenting a thorough ... ...

    Abstract This paper presents a comprehensive survey of methods which can be utilized to search for solutions to systems of nonlinear equations (SNEs). Our objectives with this survey are to synthesize pertinent literature in this field by presenting a thorough description and analysis of the known methods capable of finding one or many solutions to SNEs, and to assist interested readers seeking to identify solution techniques which are well suited for solving the various classes of SNEs which one may encounter in real world applications. To accomplish these objectives, we present a multi-part survey. In part one, we focused on root-finding approaches which can be used to search for solutions to a SNE without transforming it into an optimization problem. In part two, we introduce the various transformations which have been utilized to transform a SNE into an optimization problem, and we discuss optimization algorithms which can then be used to search for solutions. We emphasize the important characteristics of each method, and we discuss promising directions for future research. In part three, we will present a robust quantitative comparative analysis of methods capable of searching for solutions to SNEs.
    Keywords Computer Science - Mathematical Software
    Subject code 518
    Publishing date 2022-08-17
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

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  8. Book ; Online: Survey of Methods for Solving Systems of Nonlinear Equations, Part I

    Kotsireas, Ilias S. / Pardalos, Panos M. / Semenov, Alexander / Trevena, William T. / Vrahatis, Michael N.

    Root-finding Approaches

    2022  

    Abstract: This paper presents a comprehensive survey of methods which can be utilized to search for solutions to systems of nonlinear equations (SNEs). Our objectives with this survey are to synthesize pertinent literature in this field by presenting a thorough ... ...

    Abstract This paper presents a comprehensive survey of methods which can be utilized to search for solutions to systems of nonlinear equations (SNEs). Our objectives with this survey are to synthesize pertinent literature in this field by presenting a thorough description and analysis of the known methods capable of finding one or many solutions to SNEs, and to assist interested readers seeking to identify solution techniques which are well suited for solving the various classes of SNEs which one may encounter in real world applications. To accomplish these objectives, we present a multi-part survey. In part one, we focus on root-finding approaches which can be used to search for solutions to a SNE without transforming it into an optimization problem. In part two, we will introduce the various transformations which have been utilized to transform a SNE into an optimization problem, and we discuss optimization algorithms which can then be used to search for solutions. In part three, we will present a robust quantitative comparative analysis of methods capable of searching for solutions to SNEs.
    Keywords Computer Science - Mathematical Software
    Subject code 518
    Publishing date 2022-08-17
    Publishing country us
    Document type Book ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

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  9. Book ; Online: Advances in Applied Mathematics, Modeling, and Computational Science

    Melnik, Roderick / Kotsireas, Ilias S

    (Fields Institute Communications ; 66)

    2013  

    Abstract: The volume presents a selection of in-depth studies and state-of-the-art surveys of several challenging topics that are at the forefront of modern applied mathematics, mathematical modeling, and computational science. These three areas represent the ... ...

    Author's details edited by Roderick Melnik, Ilias S. Kotsireas
    Series title Fields Institute Communications ; 66
    Abstract The volume presents a selection of in-depth studies and state-of-the-art surveys of several challenging topics that are at the forefront of modern applied mathematics, mathematical modeling, and computational science. These three areas represent the foundation upon which the methodology of mathematical modeling and computational experiment is built as a ubiquitous tool in all areas of mathematical applications. This book covers both fundamental and applied research, ranging from studies of elliptic curves over finite fields with their applications to cryptography, to dynamic blocking problems, to random matrix theory with its innovative applications. The book provides the reader with state-of-the-art achievements in the development and application of new theories at the interface of applied mathematics, modeling, and computational science.This book aims at fostering interdisciplinary collaborations required to meet the modern challenges of applied mathematics, modeling, and computational science. At the same time, the contributions combine rigorous mathematical and computational procedures and examples from applications ranging from engineering to life sciences, providing a rich ground for graduate student projects.
    Keywords Mathematics ; Technik / Wissen Mathematik
    Language English
    Size Online-Ressource, digital
    Publisher Springer
    Publishing place Boston, MA
    Document type Book ; Online
    Note Description based upon print version of record
    ISBN 128390974X ; 9781283909747 ; 9781461453888 ; 9781461453895 ; 1461453887 ; 1461453895
    DOI 10.1007/978-1-4614-5389-5
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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  10. Book ; Conference proceedings: Advances in combinatorics

    Kotsireas, Ilias S / Wilf, Herbert Saul / Zima, Eugene V

    Waterloo Workshop in Computer Algebra, W80, May 26 - 29, 2011 ; [in memory of Herbert S. Wilf]

    2013  

    Event/congress W80 - Conference held on the occasion of Herb Wilf's 80th Birthday (2011.05.26-29, WaterlooOntario) ; WWCA (3, 2011.05.26-29, WaterlooOntario) ; Waterloo Workshop in Computer Algebra (3, 2011.05.26-29, WaterlooOntario)
    Author's details Ilias S. Kotsireas; Eugene V. Zima, ed
    Keywords Computeralgebra ; Kombinatorik
    Language English
    Size XX, 293 S., graph. Darst., 235 mm x 155 mm
    Publisher Springer
    Publishing place Berlin u.a.
    Document type Book ; Conference proceedings
    Note Many of the papers were featured in the Third Waterloo Workshop on Computer Algebra (WWCA 2011, W80), others were included because of their relationship to Herb Wilf's important work in combinatorics
    ISBN 364230978X ; 9783642309786 ; 9783642309793 ; 3642309798
    Database Library catalogue of the German National Library of Science and Technology (TIB), Hannover

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