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Author: Peter Deuflhard
Publisher: Springer
ISBN: 3319200593
Category : Mathematics
Languages : en
Pages : 185
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Book Description
This book is intended for students of computational systems biology with only a limited background in mathematics. Typical books on systems biology merely mention algorithmic approaches, but without offering a deeper understanding. On the other hand, mathematical books are typically unreadable for computational biologists. The authors of the present book have worked hard to fill this gap. The result is not a book on systems biology, but on computational methods in systems biology. This book originated from courses taught by the authors at Freie Universität Berlin. The guiding idea of the courses was to convey those mathematical insights that are indispensable for systems biology, teaching the necessary mathematical prerequisites by means of many illustrative examples and without any theorems. The three chapters cover the mathematical modelling of biochemical and physiological processes, numerical simulation of the dynamics of biological networks and identification of model parameters by means of comparisons with real data. Throughout the text, the strengths and weaknesses of numerical algorithms with respect to various systems biological issues are discussed. Web addresses for downloading the corresponding software are also included.
Author: Peter Deuflhard
Publisher: Springer
ISBN: 3319200593
Category : Mathematics
Languages : en
Pages : 185
Get Book Here
Book Description
This book is intended for students of computational systems biology with only a limited background in mathematics. Typical books on systems biology merely mention algorithmic approaches, but without offering a deeper understanding. On the other hand, mathematical books are typically unreadable for computational biologists. The authors of the present book have worked hard to fill this gap. The result is not a book on systems biology, but on computational methods in systems biology. This book originated from courses taught by the authors at Freie Universität Berlin. The guiding idea of the courses was to convey those mathematical insights that are indispensable for systems biology, teaching the necessary mathematical prerequisites by means of many illustrative examples and without any theorems. The three chapters cover the mathematical modelling of biochemical and physiological processes, numerical simulation of the dynamics of biological networks and identification of model parameters by means of comparisons with real data. Throughout the text, the strengths and weaknesses of numerical algorithms with respect to various systems biological issues are discussed. Web addresses for downloading the corresponding software are also included.
Author: Ne-Zheng Sun
Publisher: Springer
ISBN: 1493923234
Category : Mathematics
Languages : en
Pages : 638
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Book Description
This three-part book provides a comprehensive and systematic introduction to these challenging topics such as model calibration, parameter estimation, reliability assessment, and data collection design. Part 1 covers the classical inverse problem for parameter estimation in both deterministic and statistical frameworks, Part 2 is dedicated to system identification, hyperparameter estimation, and model dimension reduction, and Part 3 considers how to collect data and construct reliable models for prediction and decision-making. For the first time, topics such as multiscale inversion, stochastic field parameterization, level set method, machine learning, global sensitivity analysis, data assimilation, model uncertainty quantification, robust design, and goal-oriented modeling, are systematically described and summarized in a single book from the perspective of model inversion, and elucidated with numerical examples from environmental and water resources modeling. Readers of this book will not only learn basic concepts and methods for simple parameter estimation, but also get familiar with advanced methods for modeling complex systems. Algorithms for mathematical tools used in this book, such as numerical optimization, automatic differentiation, adaptive parameterization, hierarchical Bayesian, metamodeling, Markov chain Monte Carlo, are covered in details. This book can be used as a reference for graduate and upper level undergraduate students majoring in environmental engineering, hydrology, and geosciences. It also serves as an essential reference book for professionals such as petroleum engineers, mining engineers, chemists, mechanical engineers, biologists, biology and medical engineering, applied mathematicians, and others who perform mathematical modeling.
Author: Ezio Bartocci
Publisher: Springer
ISBN: 3319451774
Category : Computers
Languages : en
Pages : 361
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Book Description
This book constitutes the refereed proceedings of the 14th International Conference on Computational Methods in Systems Biology, CMSB 2016, held in Cambridge, UK, in September 2016. The 20 full papers, 3 tool papers and 9 posters presented were carefully reviewed and selected from 37 regular paper submissions. The topics include formalisms for modeling biological processes; models and their biological applications; frameworks for model verification, validation, analysis, and simulation of biological systems; high-performance computational systems biology and parallel implementations; model inference from experimental data; model integration from biological databases; multi-scale modeling and analysis methods; and computational approaches for synthetic biology.
Author: Enrique Alba
Publisher: John Wiley & Sons
ISBN: 0471739375
Category : Technology & Engineering
Languages : en
Pages : 574
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Book Description
Solving complex optimization problems with parallel metaheuristics Parallel Metaheuristics brings together an international group of experts in parallelism and metaheuristics to provide a much-needed synthesis of these two fields. Readers discover how metaheuristic techniques can provide useful and practical solutions for a wide range of problems and application domains, with an emphasis on the fields of telecommunications and bioinformatics. This volume fills a long-existing gap, allowing researchers and practitioners to develop efficient metaheuristic algorithms to find solutions. The book is divided into three parts: * Part One: Introduction to Metaheuristics and Parallelism, including an Introduction to Metaheuristic Techniques, Measuring the Performance of Parallel Metaheuristics, New Technologies in Parallelism, and a head-to-head discussion on Metaheuristics and Parallelism * Part Two: Parallel Metaheuristic Models, including Parallel Genetic Algorithms, Parallel Genetic Programming, Parallel Evolution Strategies, Parallel Ant Colony Algorithms, Parallel Estimation of Distribution Algorithms, Parallel Scatter Search, Parallel Variable Neighborhood Search, Parallel Simulated Annealing, Parallel Tabu Search, Parallel GRASP, Parallel Hybrid Metaheuristics, Parallel Multi-Objective Optimization, and Parallel Heterogeneous Metaheuristics * Part Three: Theory and Applications, including Theory of Parallel Genetic Algorithms, Parallel Metaheuristics Applications, Parallel Metaheuristics in Telecommunications, and a final chapter on Bioinformatics and Parallel Metaheuristics Each self-contained chapter begins with clear overviews and introductions that bring the reader up to speed, describes basic techniques, and ends with a reference list for further study. Packed with numerous tables and figures to illustrate the complex theory and processes, this comprehensive volume also includes numerous practical real-world optimization problems and their solutions. This is essential reading for students and researchers in computer science, mathematics, and engineering who deal with parallelism, metaheuristics, and optimization in general.
Author: Brian P. Ingalls
Publisher: MIT Press
ISBN: 0262545829
Category : Science
Languages : en
Pages : 423
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Book Description
An introduction to the mathematical concepts and techniques needed for the construction and analysis of models in molecular systems biology. Systems techniques are integral to current research in molecular cell biology, and system-level investigations are often accompanied by mathematical models. These models serve as working hypotheses: they help us to understand and predict the behavior of complex systems. This book offers an introduction to mathematical concepts and techniques needed for the construction and interpretation of models in molecular systems biology. It is accessible to upper-level undergraduate or graduate students in life science or engineering who have some familiarity with calculus, and will be a useful reference for researchers at all levels. The first four chapters cover the basics of mathematical modeling in molecular systems biology. The last four chapters address specific biological domains, treating modeling of metabolic networks, of signal transduction pathways, of gene regulatory networks, and of electrophysiology and neuronal action potentials. Chapters 3–8 end with optional sections that address more specialized modeling topics. Exercises, solvable with pen-and-paper calculations, appear throughout the text to encourage interaction with the mathematical techniques. More involved end-of-chapter problem sets require computational software. Appendixes provide a review of basic concepts of molecular biology, additional mathematical background material, and tutorials for two computational software packages (XPPAUT and MATLAB) that can be used for model simulation and analysis.
Author: Ewart Carson
Publisher: Elsevier
ISBN: 0080511902
Category : Mathematics
Languages : en
Pages : 437
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Book Description
Modelling Methodology for Physiology and Medicine offers a unique approach and an unprecedented range of coverage of the state-of-the-art, advanced modelling methodology that is widely applicable to physiology and medicine. The book opens with a clear and integrated treatment of advanced methodology for developing mathematical models of physiology and medical systems. Readers are then shown how to apply this methodology beneficially to real-world problems in physiology and medicine, such as circulation and respiration. - Builds upon and enhances the readers existing knowledge of modelling methodology and practice - Editors are internationally renowned leaders in their respective fields
Author: Pedro Mendes
Publisher: Springer
ISBN: 3319129821
Category : Computers
Languages : en
Pages : 279
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Book Description
This book constitutes the proceedings of the 12th International Conference on Computational Methods in Systems Biology, CMSB 2014, held in Manchester, UK, in November 2014. The 16 regular papers presented together with 6 poster papers were carefully reviewed and selected from 31 regular and 18 poster submissions. The papers are organized in topical sections on formalisms for modeling biological processes, model inference from experimental data, frameworks for model verification, validation, and analysis of biological systems, models and their biological applications, computational approaches for synthetic biology, and flash posters.
Author: Alessandro Abate
Publisher: Springer Nature
ISBN: 303060327X
Category : Computers
Languages : en
Pages : 387
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Book Description
This book constitutes the refereed proceedings of the 18th International Conference on Computational Methods in Systems Biology, CMSB 2020, held in Konstanz, Germany, in September 2020.* The 17 full papers and 5 tool papers were carefully reviewed and selected from 30 submissions. In addition 3 abstracts of invited talks and 2 tutorials have been included in this volume. Topics of interest include formalisms for modeling biological processes; models and their biological applications; frameworks for model verification, validation, analysis, and simulation of biological systems; high-performance computational systems biology and parallel implementations; model inference from experimental data; model integration from biological databases; multi-scale modeling and analysis methods; computational approaches for synthetic biology; and case studies in systems and synthetic biology. * The conference was held virtually due to the COVID-19 pandemic.
Author: Pablo A. Iglesias
Publisher: MIT Press
ISBN: 0262013347
Category : Biological control systems
Languages : en
Pages : 359
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Book Description
A survey of how engineering techniques from control and systems theory can be used to help biologists understand the behavior of cellular systems.
Author: Ashutosh Gupta
Publisher: Springer
ISBN: 3642407080
Category : Computers
Languages : en
Pages : 299
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Book Description
This book constitutes the proceedings of the 11th International Conference on Computational Methods in Systems Biology, CMSB 2013, held in Klosterneuburg, Austria, in September 2013. The 15 regular papers included in this volume were carefully reviewed and selected from 27 submissions. They deal with computational models for all levels, from molecular and cellular, to organs and entire organisms.
