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Computational Immunology

Computational Immunology
  • Author : Shyamasree Ghosh
  • Publisher :Unknown
  • Release Date :2019-10-14
  • Total pages :312
  • ISBN : 9781351025522
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Summary : The immune system is highly complex system with large number of macromolecules, signaling pathways, protein-protein interactions, and gene expressions. Studies from genomics, transcriptomics, metabolomics are generating huge high throughput data that needs to be analyzed for understanding the Immune system in Health and Disease. Computational approaches arehelping in understanding the study of complex biology of immunology and thereby enabling design of therapeutic strategies in diseases like infectious diseases, immunodeficiency, allergic, hypersensitive, autoimmune disorders and diseases like Cancer, HIV etc. Computational Immunology: Basics highlights the basics of the immune system and function in health and disease. This book offers comprehensive coverage of the most essential topics, including Overview of Immunology and computational Immunology Immune organs and cells, antigen, antibody, B, cell, T cell Antigen Processing and presentation Diseases due to abnormalities of the immune system Cancer Biology Shyamasree Ghosh (MSc, PhD, PGDHE, PGDBI), is currently working in the School of Biological Sciences, National Institute of Science Education and Research (NISER), Bhubaneswar, DAE, Govt of India, graduated from the prestigious Presidency College Kolkata in 1998. She was awarded the prestigious National Scholarship from the Government of India. She has worked and published extensively in glycobiology, sialic acids, immunology, stem cells and nanotechnology. She has authored several publications that include books and encyclopedia chapters in reputed journals and books.

Computational Immunology

Computational Immunology
  • Author : Shyamasree Ghosh
  • Publisher :Unknown
  • Release Date :2020-01-31
  • Total pages :172
  • ISBN : 9781351023498
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Summary : Computational Immunology: Applications focuses on different mathematical models, statistical tools, techniques, and computational modelling that helps in understanding complex phenomena of the immune system and its biological functions. The book also focuses on the latest developments in computational biology in designing of drugs, targets, biomarkers for early detection and prognosis of a disease. It highlights the applications of computational methods in deciphering the complex processes of the immune system and its role in health and disease. This book discusses the most essential topics, including Next generation sequencing (NGS) and computational immunology Computational modelling and biology of diseases Drug designing Computation and identification of biomarkers Application in organ transplantation Application in disease detection and therapy Computational methods and applications in understanding of the invertebrate immune system S Ghosh is MSc, PhD, PGDHE, PGDBI, is PhD from IICB, CSIR, Kolkata, awarded the prestigious National Scholarship from the Government of India. She has worked and published extensively in glycobiology, sialic acids, immunology, stem cells and nanotechnology. She has authored several publications that include books and encyclopedia chapters in reputed journals and books.

Computational Immunology

Computational Immunology
  • Author : Josep Bassaganya-Riera
  • Publisher :Unknown
  • Release Date :2015-10-21
  • Total pages :210
  • ISBN : 9780128037157
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Summary : Computational Immunology: Models and Tools encompasses the methodological framework and application of cutting-edge tools and techniques to study immunological processes at a systems level, along with the concept of multi-scale modeling. The book's emphasis is on selected cases studies and application of the most updated technologies in computational modeling, discussing topics such as computational modeling and its usage in immunological research, bioinformatics infrastructure, ODE based modeling, agent based modeling, and high performance computing, data analytics, and multiscale modeling. There are also modeling exercises using recent tools and models which lead the readers to a thorough comprehension and applicability. The book is a valuable resource for immunologists, computational biologists, bioinformaticians, biotechnologists, and computer scientists, as well as all those who wish to broaden their knowledge in systems modeling. Offers case studies with different levels of complexity Provides a detailed view on cutting-edge tools for modeling that are useful to experimentalists with limited computational skills Explores the usage of simulation for hypothesis generation, helping the reader to understand the most valuable points on experimental setting

Methods and Applications of Computational Immunology

Methods and Applications of Computational Immunology
  • Author : Victor Greiff,Gur Yaari,Johannes Textor,Benny Chain
  • Publisher :Unknown
  • Release Date :2020-01-30
  • Total pages :229
  • ISBN : 9782889633883
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Computational Immunology

Computational Immunology
  • Author : Josep Bassaganya-Riera
  • Publisher :Unknown
  • Release Date :2015-10-21
  • Total pages :210
  • ISBN : 9780128037157
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Summary : Computational Immunology: Models and Tools encompasses the methodological framework and application of cutting-edge tools and techniques to study immunological processes at a systems level, along with the concept of multi-scale modeling. The book's emphasis is on selected cases studies and application of the most updated technologies in computational modeling, discussing topics such as computational modeling and its usage in immunological research, bioinformatics infrastructure, ODE based modeling, agent based modeling, and high performance computing, data analytics, and multiscale modeling. There are also modeling exercises using recent tools and models which lead the readers to a thorough comprehension and applicability. The book is a valuable resource for immunologists, computational biologists, bioinformaticians, biotechnologists, and computer scientists, as well as all those who wish to broaden their knowledge in systems modeling. Offers case studies with different levels of complexity Provides a detailed view on cutting-edge tools for modeling that are useful to experimentalists with limited computational skills Explores the usage of simulation for hypothesis generation, helping the reader to understand the most valuable points on experimental setting

Immunoinformatics

Immunoinformatics
  • Author : Christian Schönbach,Shoba Ranganathan,Vladimir Brusic
  • Publisher :Unknown
  • Release Date :2007-11-21
  • Total pages :200
  • ISBN : 9780387729688
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Summary : In contrast to existing books on immunoinformatics, this volume presents a cross-section of immunoinformatics research. The contributions highlight the interdisciplinary nature of the field and how collaborative efforts among bioinformaticians and bench scientists result in innovative strategies for understanding the immune system. Immunoinformatics is ideal for scientists and students in immunology, bioinformatics, microbiology, and many other disciplines.

Immunological Bioinformatics

Immunological Bioinformatics
  • Author : Ole Lund,Morten Nielsen,Søren Brunak,Claus Lundegaard,Can Kesmir
  • Publisher :Unknown
  • Release Date :2005
  • Total pages :296
  • ISBN : 0262122804
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Summary : Using bioinformatics methods to generate a systems-level view of the immune system; description of the main biological concepts and the new data-driven algorithms. Despite the fact that advanced bioinformatics methodologies have not been used as extensively in immunology as in other subdisciplines within biology, research in immunological bioinformatics has already developed models of components of the immune system that can be combined and that may help develop therapies, vaccines, and diagnostic tools for such diseases as AIDS, malaria, and cancer. In a broader perspective, specialized bioinformatics methods in immunology make possible for the first time a systems-level understanding of the immune system. The traditional approaches to immunology are reductionist, avoiding complexity but providing detailed knowledge of a single event, cell, or molecular entity. Today, a variety of experimental bioinformatics techniques connected to the sequencing of the human genome provides a sound scientific basis for a comprehensive description of the complex immunological processes. This book offers a description of bioinformatics techniques as they are applied to immunology, including a succinct account of the main biological concepts for students and researchers with backgrounds in mathematics, statistics, and computer science as well as explanations of the new data-driven algorithms in the context of biological data that will be useful for immunologists, biologists, and biochemists working on vaccine design. In each chapter the authors show interesting biological insights gained from the bioinformatics approach. The book concludes by explaining how all the methods presented in the book can be integrated to identify immunogenic regions in microorganisms and host genomes.

Systems Immunology

Systems Immunology
  • Author : Jayajit Das,Ciriyam Jayaprakash
  • Publisher :Unknown
  • Release Date :2018-09-03
  • Total pages :334
  • ISBN : 9781498717410
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Summary : "Taken together, the body of information contained in this book provides readers with a bird’s-eye view of different aspects of exciting work at the convergence of disciplines that will ultimately lead to a future where we understand how immunity is regulated, and how we can harness this knowledge toward practical ends that reduce human suffering. I commend the editors for putting this volume together." –Arup K. Chakraborty, Robert T. Haslam Professor of Chemical Engineering, and Professor of Physics, Chemistry, and Biological Engineering, Massachusetts Institute of Technology, Cambridge, USA New experimental techniques in immunology have produced large and complex data sets that require quantitative modeling for analysis. This book provides a complete overview of computational immunology, from basic concepts to mathematical modeling at the single molecule, cellular, organism, and population levels. It showcases modern mechanistic models and their use in making predictions, designing experiments, and elucidating underlying biochemical processes. It begins with an introduction to data analysis, approximations, and assumptions used in model building. Core chapters address models and methods for studying immune responses, with fundamental concepts clearly defined. Readers from immunology, quantitative biology, and applied physics will benefit from the following: Fundamental principles of computational immunology and modern quantitative methods for studying immune response at the single molecule, cellular, organism, and population levels. An overview of basic concepts in modeling and data analysis. Coverage of topics where mechanistic modeling has contributed substantially to current understanding. Discussion of genetic diversity of the immune system, cell signaling in the immune system, immune response at the cell population scale, and ecology of host-pathogen interactions.

Killer Cell Dynamics

Killer Cell Dynamics
  • Author : Dominik Wodarz
  • Publisher :Unknown
  • Release Date :2007-04-05
  • Total pages :220
  • ISBN : 9780387687339
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Summary : This book reviews how mathematical and computational approaches can be useful to help us understand how killer T-cell responses work to fight viral infections. It also demonstrates, in a writing style that exemplifies the point, that such mathematical and computational approaches are most valuable when coupled with experimental work through interdisciplinary collaborations. Designed to be useful to immunoligists and viroligists without extensive computational background, the book covers a broad variety of topics, including both basic immunological questions and the application of these insights to the understanding and treatment of pathogenic human diseases.

Conceptual Modelling in Computational Immunology

Conceptual Modelling in Computational Immunology
  • Author : Martina Husáková
  • Publisher :Unknown
  • Release Date :2015-09-10
  • Total pages :174
  • ISBN : 9788087924020
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Summary : Computational immunology offers in silico strategies for understanding of complex processes occurring in the natural immune system of a living organism that are difficult to explore by traditional in vivo or in vitro techniques. The monograph introduces conceptual languages and approaches for modelling biological processes. The Agent Modelling Language is investigated for conceptualisation of immune processes. AML-based diagrams represent properties and processes occurring in a lymph node.

Computational Topology for Biomedical Image and Data Analysis

Computational Topology for Biomedical Image and Data Analysis
  • Author : Rodrigo Rojas Moraleda,Nektarios A. Valous,Wei Xiong,Niels Halama
  • Publisher :Unknown
  • Release Date :2019-07-12
  • Total pages :116
  • ISBN : 9780429810985
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Summary : This book provides an accessible yet rigorous introduction to topology and homology focused on the simplicial space. It presents a compact pipeline from the foundations of topology to biomedical applications. It will be of interest to medical physicists, computer scientists, and engineers, as well as undergraduate and graduate students interested in this topic. Features: Presents a practical guide to algebraic topology as well as persistence homology Contains application examples in the field of biomedicine, including the analysis of histological images and point cloud data

In Silico Immunology

In Silico Immunology
  • Author : Darren D.R. Flower,Jon Timmis
  • Publisher :Unknown
  • Release Date :2007-04-16
  • Total pages :451
  • ISBN : 9780387392417
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Summary : This book outlines three emergent disciplines, which are now poised to engineer a paradigm shift from hypothesis- to data-driven research: theoretical immunology, immunoinformatics, and Artificial Immune Systems. It details how these disciplines will enable new understanding to emerge from the analysis of complex datasets. Coverage shows how these three are set to transform immunological science and the future of health care.

Algorithms for Computational Biology

Algorithms for Computational Biology
  • Author : Adrian-Horia Dediu,Carlos Martín-Vide,Bianca Truthe
  • Publisher :Unknown
  • Release Date :2014-06-07
  • Total pages :275
  • ISBN : 9783319079530
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Summary : This book constitutes the refereed proceedings of the First International Conference, AlCoB 2014, held in July 2014 in Tarragona, Spain. The 20 revised full papers were carefully reviewed and selected from 39 submissions. The scope of AlCoB includes topics of either theoretical or applied interest, namely: exact sequence analysis, approximate sequence analysis, pairwise sequence alignment, multiple sequence alignment, sequence assembly, genome rearrangement, regulatory motif finding, phylogeny reconstruction, phylogeny comparison, structure prediction, proteomics: molecular pathways, interaction networks, transcriptomics: splicing variants, isoform inference and quantification, differential analysis, next-generation sequencing: population genomics, metagenomics, metatranscriptomics, microbiome analysis, systems biology.

Computational Biology of Cancer

Computational Biology of Cancer
  • Author : Dominik Wodarz,Natalia Komarova
  • Publisher :Unknown
  • Release Date :2005-01-24
  • Total pages :264
  • ISBN : 9789814481878
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Summary : ' The book shows how mathematical and computational models can be used to study cancer biology. It introduces the concept of mathematical modeling and then applies it to a variety of topics in cancer biology. These include aspects of cancer initiation and progression, such as the somatic evolution of cells, genetic instability, and angiogenesis. The book also discusses the use of mathematical models for the analysis of therapeutic approaches such as chemotherapy, immunotherapy, and the use of oncolytic viruses. Contents:Cancer and Somatic EvolutionMathematical Modeling of TumorigenesisCancer Initiation: One-Hit and Two-Hit Stochastic ModelsMicrosatellite and Chromosomal Istability in Sporadic and Familial CancersCellular Origins of CancerCosts and Benefits of Chromosomal InstabilityDNA Damage and Genetic InstabilityTissue Aging and the Development of CancerBasic Models of Tumor Inhibition and PromotionMechanisms of Tumor NeovascularizationCancer and Immune ResponsesTherapeutic Approaches: Viruses as Anti-Tumor Weapons Readership: Researchers and academics in bioinformatics, biocomputing, biomathematics, cell/molecular biology and cancer biology, as well as clinicians. Keywords:Mathematics Models;Computational Biology;Cancer Initiation;Cancer Progression;Somatic Evolution;Genetic Instability;Therapy;Oncolytic VirusesKey Features:Provides an introduction to computational methods in cancer biologyFollows a multi-disciplinary approachReviews:“This book adds aspects not covered by other books and, therefore, represents a valuable addition to the literature about mathematical models in cancer biology.”Zentralblatt MATH '

In Silico Immunology

In Silico Immunology
  • Author : Darren D.R. Flower,Jon Timmis
  • Publisher :Unknown
  • Release Date :2007-04-16
  • Total pages :451
  • ISBN : 9780387392417
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Summary : This book outlines three emergent disciplines, which are now poised to engineer a paradigm shift from hypothesis- to data-driven research: theoretical immunology, immunoinformatics, and Artificial Immune Systems. It details how these disciplines will enable new understanding to emerge from the analysis of complex datasets. Coverage shows how these three are set to transform immunological science and the future of health care.

Immune System Modelling and Simulation

Immune System Modelling and Simulation
  • Author : Filippo Castiglione,Franco Celada
  • Publisher :Unknown
  • Release Date :2015-04-07
  • Total pages :286
  • ISBN : 9781466597495
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Summary : The book describes a computational model of the immune system reaction, C-ImmSim, built along the lines of the computer model known as the Celada-Seiden model (CS-model). The computational counterpart of the CS-model is called IMMSIM which stands for IMMune system SIMulator. IMMSIM was written in 1992 by the physicist Phil E. Seiden and the immunologist Franco Celada. This model was built around the idea of developing a computerized system to perform experiments similar in vivo experiments; a tool developed to help biologists testing theories and hypothesis about how the immune system works. C-ImmSim is best viewed as a collection of models in a single program. It incorporates the principal core facts of today’s immunological knowledge, such as the diversity of specific elements, MHC restriction, clonal selection, thymic education of T cells, antigen processing and presentation (both the cytosolic and endocytic pathways are implemented), cell-cell cooperation, homeostasis of cells created by the bone marrow, hyper mutation of antibodies, maturation of the cellular and humoral response, and memory. Besides, an antigen can represent a bacterium, a virus, or an allergen or a tumor cell. C-ImmSim has been recently customized to simulate the HIV-1 infection. Moreover, it can simulate the immunotherapy for cancer. These features are all present in the code and people can choose to turn them on and off at compiling time. The book presents the basic model as well as the various customizations to implement the description of different diseases and the way they have been used in practice to produce new knowledge either from hypothesis or from lab-experiment data. In this respect, the book can be used as a practical guide to implement a computational model with which to study a specific disease and to try to address realistic clinical questions.

Encyclopedia of Bioinformatics and Computational Biology

Encyclopedia of Bioinformatics and Computational Biology
  • Author : Anonim
  • Publisher :Unknown
  • Release Date :2018-08-21
  • Total pages :3284
  • ISBN : 9780128114322
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Summary : Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases

Immunoinformatics

Immunoinformatics
  • Author : Namrata Tomar
  • Publisher :Unknown
  • Release Date :2020-04-24
  • Total pages :410
  • ISBN : 1071603884
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Summary : This book covers a wide range of diverse immunoinformatics research topics, involving tools and databases of potential epitope prediction, HLA gene analysis, MHC characterizing, in silico vaccine design, mathematical modeling of host-pathogen interactions, and network analysis of immune system data. In that way, this fully updated volume explores the enormous value of computational tools and models in immunology research. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of key insights and detailed implementation advice to encourage successful results in the lab. Authoritative and practical, Immunoinformatics, Third Edition serves as an ideal guide for scientists working at the intersection of bioinformatics, mathematical modelling, and statistics for the study of immune systems biology.

Bioinformatics for Vaccinology

Bioinformatics for Vaccinology
  • Author : Darren R. Flower
  • Publisher :Unknown
  • Release Date :2008-10-13
  • Total pages :302
  • ISBN : 9780470699829
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Summary : “... this book was written from start to finish by one extremely dedicated and erudite individual. The author has done an excellent job of covering the many topics that fall under the umbrella of computational biology for vaccine design, demonstrating an admirable command of subject matter in fields as disparate as object-oriented databases and regulation of T cell response. Simply put, it has just the right breadth and depth, and it reads well. In fact, readability is one of its virtues—making the book enticing and useful, all at once...” Human Vaccines, 2010 "... This book has several strong points. Although there are many textbooks that deal with vaccinology, few attempts have been made to bring together descriptions of vaccines in history, basic bioinformatics, various computational solutions and challenges in vaccinology, detailed experimental methodologies, and cutting-edge technologies... This book may well serve as a first line of reference for all biologists and computer scientists..." –Virology Journal, 2009 Vaccines have probably saved more lives and reduced suffering in a greater number of people than any other medical intervention in human history, succeeding in eradicating smallpox and significantly reducing the mortality and incidence of other diseases. However, with the emergence of diseases such as SARS and the threat of biological warfare, vaccination has once again become a topic of major interest in public health. Vaccinology now has at its disposal an array of post-genomic approaches of great power. None has a more persuasive potential impact than the application of computational informatics to vaccine discovery; the recent expansion in genome data and the parallel increase in cheap computing power have placed the bioinformatics exploration of pathogen genomes centre stage for vaccine researchers. This is the first book to address the area of bioinformatics as applied to rational vaccine design, discussing the ways in which bioinformatics can contribute to improved vaccine development by introducing the subject of harnessing the mathematical and computing power inherent in bioinformatics to the study of vaccinology putting it into a historical and societal context, and exploring the scope of its methods and applications. Bioinformatics for Vaccinology is a one-stop introduction to computational vaccinology. It will be of particular interest to bioinformaticians with an interest in immunology, as well as to immunologists, and other biologists who need to understand how advances in theoretical and computational immunobiology can transform their working practices.

BCR Signaling and B Cell Activation

BCR Signaling and B Cell Activation
  • Author : Wanli Liu,Pavel Tolar,Wenxia Song,Tae Jin Kim
  • Publisher :Unknown
  • Release Date :2020-02-24
  • Total pages :229
  • ISBN : 9782889635375
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Advances in Systems Immunology and Cancer

Advances in Systems Immunology and Cancer
  • Author : Masaru Tomita
  • Publisher :Unknown
  • Release Date :2014-12-17
  • Total pages :229
  • ISBN : 9782889193134
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Summary :