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Immune System Modelling and Simulation

Immune System Modelling and Simulation Author Filippo Castiglione
ISBN-10 9781466597495
Release 2015-04-07
Pages 286
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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.



A Survey of Models for Tumor Immune System Dynamics

A Survey of Models for Tumor Immune System Dynamics Author John Adam
ISBN-10 9780817681197
Release 2012-10-06
Pages 344
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Mathematical Modeling and Immunology An enormous amount of human effort and economic resources has been directed in this century to the fight against cancer. The purpose, of course, has been to find strategies to overcome this hard, challenging and seemingly endless struggle. We can readily imagine that even greater efforts will be required in the next century. The hope is that ultimately humanity will be successful; success will have been achieved when it is possible to activate and control the immune system in its competition against neoplastic cells. Dealing with the above-mentioned problem requires the fullest pos sible cooperation among scientists working in different fields: biology, im munology, medicine, physics and, we believe, mathematics. Certainly, bi ologists and immunologists will make the greatest contribution to the re search. However, it is now increasingly recognized that mathematics and computer science may well able to make major contributions to such prob lems. We cannot expect mathematicians alone to solve fundamental prob lems in immunology and (in particular) cancer research, but valuable sup port, however modest, can be provided by mathematicians to the research aspirations of biologists and immunologists working in this field.



Artificial Immune Systems

Artificial Immune Systems Author Pietro Lio
ISBN-10 9783642223716
Release 2011-07-06
Pages 468
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This book constitutes the refereed proceedings of the 10th International Conference on Artificial Immune Systems, ICARIS 2011, held in Cambridge, UK, in July 2011. The 37 revised full papers were carefully reviewed and selected from numerous submissions. The papers are organized in topical sections on immunoinformatics and computational immunology; theory of immunological computation; and applied immunological computation.



Cancer Modelling and Simulation

Cancer Modelling and Simulation Author Luigi Preziosi
ISBN-10 020349489X
Release 2003-06-18
Pages 454
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Understanding how cancer tumours develop and spread is vital for finding treatments and cures. Cancer Modelling and Simulation demonstrates how mathematical modelling and computer simulation techniques are used to discover and gain insight into the dynamics of tumour development and growth. It highlights the benefits of tumour modelling, such as discovering optimal tumour therapy schedules, identifying the most promising candidates for further clinical investigation, and reducing the number of animal experiments. By examining the analytical, mathematical, and biological aspects of tumour growth and modelling, the book provides a common language and knowledge for professionals in several disciplines.



Mathematical Modeling of Complex Biological Systems

Mathematical Modeling of Complex Biological Systems Author Abdelghani Bellouquid
ISBN-10 9780817645038
Release 2007-10-10
Pages 188
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This book describes the evolution of several socio-biological systems using mathematical kinetic theory. Specifically, it deals with modeling and simulations of biological systems whose dynamics follow the rules of mechanics as well as rules governed by their own ability to organize movement and biological functions. It proposes a new biological model focused on the analysis of competition between cells of an aggressive host and cells of a corresponding immune system. Proposed models are related to the generalized Boltzmann equation. The book may be used for advanced graduate courses and seminars in biological systems modeling.



Computational Immunology

Computational Immunology Author Josep Bassaganya-Riera
ISBN-10 9780128037157
Release 2015-10-21
Pages 210
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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



Mathematical Methods and Models in Biomedicine

Mathematical Methods and Models in Biomedicine Author Urszula Ledzewicz
ISBN-10 9781461441786
Release 2012-10-20
Pages 427
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Mathematical biomedicine is a rapidly developing interdisciplinary field of research that connects the natural and exact sciences in an attempt to respond to the modeling and simulation challenges raised by biology and medicine. There exist a large number of mathematical methods and procedures that can be brought in to meet these challenges and this book presents a palette of such tools ranging from discrete cellular automata to cell population based models described by ordinary differential equations to nonlinear partial differential equations representing complex time- and space-dependent continuous processes. Both stochastic and deterministic methods are employed to analyze biological phenomena in various temporal and spatial settings. This book illustrates the breadth and depth of research opportunities that exist in the general field of mathematical biomedicine by highlighting some of the fascinating interactions that continue to develop between the mathematical and biomedical sciences. It consists of five parts that can be read independently, but are arranged to give the reader a broader picture of specific research topics and the mathematical tools that are being applied in its modeling and analysis. The main areas covered include immune system modeling, blood vessel dynamics, cancer modeling and treatment, and epidemiology. The chapters address topics that are at the forefront of current biomedical research such as cancer stem cells, immunodominance and viral epitopes, aggressive forms of brain cancer, or gene therapy. The presentations highlight how mathematical modeling can enhance biomedical understanding and will be of interest to both the mathematical and the biomedical communities including researchers already working in the field as well as those who might consider entering it. Much of the material is presented in a way that gives graduate students and young researchers a starting point for their own work.



Life System Modeling and Simulation

Life System Modeling and Simulation Author Minrui Fei
ISBN-10 9783540747710
Release 2007-08-24
Pages 288
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This book is part of a two-volume work that constitutes the refereed proceedings of the International Conference on Life System Modeling and Simulation, LSMS 2007, held in Shanghai, China, September 2007. Coverage includes modeling and simulation of societies and collective behavior, computational methods and intelligence in biomechanical systems, tissue engineering and clinical bioengineering, computational intelligence in bioinformatics and biometrics, and brain stimulation.



Artificial Immune Systems

Artificial Immune Systems Author Carlos A. Coello-Coello
ISBN-10 9783642337574
Release 2012-08-27
Pages 293
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This book constitutes the refereed proceedings of the 11th International Conference on Artificial Immune Systems, ICARIS 2012, held in Taormia, Italy, in August 2012. The 19 revised selected papers presented were carefully reviewed and selected for inclusion in this book. In addition 4 papers of the workshop on bio and immune inspired algorithms and models for multi-level complex systems are included in this volume. Artificial immune systems (AIS) is a diverse and maturing area of research that bridges the disciplines of immunology, biology, medical science, computer science, physics, mathematics and engineering. The scope of AIS ranges from modelling and simulation of the immune system through to immune-inspired algorithms and in silico, in vitro and in vivo solutions.



An Introduction to Agent Based Modeling

An Introduction to Agent Based Modeling Author Uri Wilensky
ISBN-10 9780262731898
Release 2015-04-10
Pages 504
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A comprehensive and hands-on introduction to the core concepts, methods, and applications of agent-based modeling, including detailed NetLogo examples.



Mathematical Models of Tumor Immune System Dynamics

Mathematical Models of Tumor Immune System Dynamics Author Amina Eladdadi
ISBN-10 9781493917938
Release 2014-11-06
Pages 275
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This collection of papers offers a broad synopsis of state-of-the-art mathematical methods used in modeling the interaction between tumors and the immune system. These papers were presented at the four-day workshop on Mathematical Models of Tumor-Immune System Dynamics held in Sydney, Australia from January 7th to January 10th, 2013. The workshop brought together applied mathematicians, biologists, and clinicians actively working in the field of cancer immunology to share their current research and to increase awareness of the innovative mathematical tools that are applicable to the growing field of cancer immunology. Recent progress in cancer immunology and advances in immunotherapy suggest that the immune system plays a fundamental role in host defense against tumors and could be utilized to prevent or cure cancer. Although theoretical and experimental studies of tumor-immune system dynamics have a long history, there are still many unanswered questions about the mechanisms that govern the interaction between the immune system and a growing tumor. The multidimensional nature of these complex interactions requires a cross-disciplinary approach to capture more realistic dynamics of the essential biology. The papers presented in this volume explore these issues and the results will be of interest to graduate students and researchers in a variety of fields within mathematical and biological sciences.



Immune system modeling and analysis

Immune system modeling and analysis Author Ramit Mehr
ISBN-10 9782889195015
Release 2015-04-22
Pages
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The rapid development of new methods for immunological data collection – from multicolor flow cytometry, through single-cell imaging, to deep sequencing – presents us now, for the first time, with the ability to analyze and compare large amounts of immunological data in health, aging and disease. The exponential growth of these datasets, however, challenges the theoretical immunology community to develop methods for data organization and analysis. Furthermore, the need to test hypotheses regarding immune function, and generate predictions regarding the outcomes of medical interventions, necessitates the development of mathematical and computational models covering processes on multiple scales, from the genetic and molecular to the cellular and system scales. The last few decades have seen the development of methods for presentation and analysis of clonal repertoires (those of T and B lymphocytes) and phenotypic (surface-marker based) repertoires of all lymphocyte types, and for modeling the intricate network of molecular and cellular interactions within the immune systems. This e-Book, which has first appeared as a ‘Frontiers in Immunology’ research topic, provides a comprehensive, online, open access snapshot of the current state of the art on immune system modeling and analysis.



Artificial Immune Systems and Their Applications

Artificial Immune Systems and Their Applications Author Dipankar Dasgupta
ISBN-10 9783642599019
Release 2012-12-06
Pages 306
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This is a pioneering work on the emerging field of artificial immune systems-highly distributed systems based on the principles of the natural system. Like artificial neural networks, artificial immune systems can learn new information and recall previously learned information. This book provides an overview of artificial immune systems, explaining its applications in areas such as immunological memory, anomaly detection algorithms, and modeling the effects of prior infection on vaccine efficacy.



In Silico Immunology

In Silico Immunology Author Darren D.R. Flower
ISBN-10 9780387392417
Release 2007-04-16
Pages 451
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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.



Soft Computing and Industry

Soft Computing and Industry Author Rajkumar Roy
ISBN-10 9781447101239
Release 2012-12-06
Pages 852
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Soft computing embraces various methodologies for the development of intelligent systems that have been successfully applied to a large number of real-world problems. Soft Computing in Industry contains a collection of papers that were presented at the 6th On-line World Conference on Soft Computing in Industrial Applications that was held in September 2001. It provides a comprehensive overview of recent theoretical developments in soft computing as well as of successful industrial applications. It is divided into seven parts covering material on: keynote papers on various subjects ranging from computing with autopoietic systems to the effects of the Internet on education; intelligent control; classification, clustering and optimization; image and signal processing; agents, multimedia and Internet; theoretical advances; prediction, design and diagnosis. The book is aimed at researchers and professional engineers who develop and apply intelligent systems in computer engineering.



Conceptual Modelling in Computational Immunology

Conceptual Modelling in Computational Immunology Author Martina Husáková
ISBN-10 9788087924020
Release 2015-09-10
Pages 174
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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.



Modeling Infectious Diseases in Humans and Animals

Modeling Infectious Diseases in Humans and Animals Author Matt J. Keeling
ISBN-10 9781400841035
Release 2011-09-19
Pages 408
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For epidemiologists, evolutionary biologists, and health-care professionals, real-time and predictive modeling of infectious disease is of growing importance. This book provides a timely and comprehensive introduction to the modeling of infectious diseases in humans and animals, focusing on recent developments as well as more traditional approaches. Matt Keeling and Pejman Rohani move from modeling with simple differential equations to more recent, complex models, where spatial structure, seasonal "forcing," or stochasticity influence the dynamics, and where computer simulation needs to be used to generate theory. In each of the eight chapters, they deal with a specific modeling approach or set of techniques designed to capture a particular biological factor. They illustrate the methodology used with examples from recent research literature on human and infectious disease modeling, showing how such techniques can be used in practice. Diseases considered include BSE, foot-and-mouth, HIV, measles, rubella, smallpox, and West Nile virus, among others. Particular attention is given throughout the book to the development of practical models, useful both as predictive tools and as a means to understand fundamental epidemiological processes. To emphasize this approach, the last chapter is dedicated to modeling and understanding the control of diseases through vaccination, quarantine, or culling. Comprehensive, practical introduction to infectious disease modeling Builds from simple to complex predictive models Models and methodology fully supported by examples drawn from research literature Practical models aid students' understanding of fundamental epidemiological processes For many of the models presented, the authors provide accompanying programs written in Java, C, Fortran, and MATLAB In-depth treatment of role of modeling in understanding disease control