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Control Theory And Systems Biology
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Book Synopsis Control Theory and Systems Biology by : Pablo A. Iglesias
Download or read book Control Theory and Systems Biology written by Pablo A. Iglesias and published by MIT Press. This book was released on 2010 with total page 359 pages. Available in PDF, EPUB and Kindle. Book excerpt: A survey of how engineering techniques from control and systems theory can be used to help biologists understand the behavior of cellular systems.
Book Synopsis Feedback Control in Systems Biology by : Carlo Cosentino
Download or read book Feedback Control in Systems Biology written by Carlo Cosentino and published by CRC Press. This book was released on 2011-10-17 with total page 298 pages. Available in PDF, EPUB and Kindle. Book excerpt: Like engineering systems, biological systems must also operate effectively in the presence of internal and external uncertainty—such as genetic mutations or temperature changes, for example. It is not surprising, then, that evolution has resulted in the widespread use of feedback, and research in systems biology over the past decade has shown that feedback control systems are widely found in biology. As an increasing number of researchers in the life sciences become interested in control-theoretic ideas such as feedback, stability, noise and disturbance attenuation, and robustness, there is a need for a text that explains feedback control as it applies to biological systems. Written by established researchers in both control engineering and systems biology, Feedback Control in Systems Biology explains how feedback control concepts can be applied to systems biology. Filling the need for a text on control theory for systems biologists, it provides an overview of relevant ideas and methods from control engineering and illustrates their application to the analysis of biological systems with case studies in cellular and molecular biology. Control Theory for Systems Biologists The book focuses on the fundamental concepts used to analyze the effects of feedback in biological control systems, rather than the control system design methods that form the core of most control textbooks. In addition, the authors do not assume that readers are familiar with control theory. They focus on "control applications" such as metabolic and gene-regulatory networks rather than aircraft, robots, or engines, and on mathematical models derived from classical reaction kinetics rather than classical mechanics. Another significant feature of the book is that it discusses nonlinear systems, an understanding of which is crucial for systems biologists because of the highly nonlinear nature of biological systems. The authors cover tools and techniques for the analysis of linear and nonlinear systems; negative and positive feedback; robustness analysis methods; techniques for the reverse-engineering of biological interaction networks; and the analysis of stochastic biological control systems. They also identify new research directions for control theory inspired by the dynamic characteristics of biological systems. A valuable reference for researchers, this text offers a sound starting point for scientists entering this fascinating and rapidly developing field.
Book Synopsis Mathematical Modeling in Systems Biology by : Brian P. Ingalls
Download or read book Mathematical Modeling in Systems Biology written by Brian P. Ingalls and published by MIT Press. This book was released on 2022-06-07 with total page 423 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Book Synopsis Complexity, Analysis and Control of Singular Biological Systems by : Qingling Zhang
Download or read book Complexity, Analysis and Control of Singular Biological Systems written by Qingling Zhang and published by Springer. This book was released on 2012-02-16 with total page 236 pages. Available in PDF, EPUB and Kindle. Book excerpt: Complexity, Analysis and Control of Singular Biological Systems follows the control of real-world biological systems at both ecological and phyisological levels concentrating on the application of now-extensively-investigated singular system theory. Much effort has recently been dedicated to the modelling and analysis of developing bioeconomic systems and the text establishes singular examples of these, showing how proper control can help to maintain sustainable economic development of biological resources. The book begins from the essentials of singular systems theory and bifurcations before tackling the use of various forms of control in singular biological systems using examples including predator-prey relationships and viral vaccination and quarantine control. Researchers and graduate students studying the control of complex biological systems are shown how a variety of methods can be brought to bear and practitioners working with the economics of biological systems and their control will also find the monograph illuminating.
Book Synopsis Dynamical System Theory in Biology: Stability theory and its applications by : Robert Rosen
Download or read book Dynamical System Theory in Biology: Stability theory and its applications written by Robert Rosen and published by John Wiley & Sons. This book was released on 1970 with total page 330 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Collective Behavior In Systems Biology by : Assaf Steinschneider
Download or read book Collective Behavior In Systems Biology written by Assaf Steinschneider and published by Academic Press. This book was released on 2019-09-04 with total page 260 pages. Available in PDF, EPUB and Kindle. Book excerpt: Collective Behavior In Systems Biology: A Primer on Modeling Infrastructure offers a survey of established and emerging methods for quantifying process behavior in cellular systems. It introduces and applies mathematics and related abstract methods to processes in biological systems - why they are used, how they work, and what they mean. Emphasizing differential equations in an interdisciplinary approach, this book discusses infrastructure for kinetic modeling, technological system and control theories, optimization, and process behavior in cellular networks. The knowledge that the reader gains will be valuable for entering and keeping up with a rapidly developing discipline. Introduces basics of mathematical and abstract methods for understanding, predicting, and modifying collective behavior in cellular systems Targets biomedical professionals as well as computational specialists who are willing to take advantage of novel high-throughput data acquisition technologies
Book Synopsis Stochastic Approaches for Systems Biology by : Mukhtar Ullah
Download or read book Stochastic Approaches for Systems Biology written by Mukhtar Ullah and published by Springer Science & Business Media. This book was released on 2011-07-15 with total page 290 pages. Available in PDF, EPUB and Kindle. Book excerpt: This textbook focuses on stochastic analysis in systems biology containing both the theory and application. While the authors provide a review of probability and random variables, subsequent notions of biochemical reaction systems and the relevant concepts of probability theory are introduced side by side. This leads to an intuitive and easy-to-follow presentation of stochastic framework for modeling subcellular biochemical systems. In particular, the authors make an effort to show how the notion of propensity, the chemical master equation and the stochastic simulation algorithm arise as consequences of the Markov property. The text contains many illustrations, examples and exercises to illustrate the ideas and methods that are introduced. Matlab code is also provided where appropriate. Additionally, the cell cycle is introduced as a more complex case study. Senior undergraduate and graduate students in mathematics and physics as well as researchers working in the area of systems biology, bioinformatics and related areas will find this text useful.
Book Synopsis Systems Biology by : Andreas Kremling
Download or read book Systems Biology written by Andreas Kremling and published by CRC Press. This book was released on 2013-11-12 with total page 382 pages. Available in PDF, EPUB and Kindle. Book excerpt: Drawing on the latest research in the field, Systems Biology: Mathematical Modeling and Model Analysis presents many methods for modeling and analyzing biological systems, in particular cellular systems. It shows how to use predictive mathematical models to acquire and analyze knowledge about cellular systems. It also explores how the models are systematically applied in biotechnology. The first part of the book introduces biological basics, such as metabolism, signaling, gene expression, and control as well as mathematical modeling fundamentals, including deterministic models and thermodynamics. The text also discusses linear regression methods, explains the differences between linear and nonlinear regression, and illustrates how to determine input variables to improve estimation accuracy during experimental design. The second part covers intracellular processes, including enzymatic reactions, polymerization processes, and signal transduction. The author highlights the process–function–behavior sequence in cells and shows how modeling and analysis of signal transduction units play a mediating role between process and function. The third part presents theoretical methods that address the dynamics of subsystems and the behavior near a steady state. It covers techniques for determining different time scales, sensitivity analysis, structural kinetic modeling, and theoretical control engineering aspects, including a method for robust control. It also explores frequent patterns (motifs) in biochemical networks, such as the feed-forward loop in the transcriptional network of E. coli. Moving on to models that describe a large number of individual reactions, the last part looks at how these cellular models are used in biotechnology. The book also explains how graphs can illustrate the link between two components in large networks with several interactions.
Book Synopsis Optimal Control Applied to Biological Models by : Suzanne Lenhart
Download or read book Optimal Control Applied to Biological Models written by Suzanne Lenhart and published by CRC Press. This book was released on 2007-05-07 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: From economics and business to the biological sciences to physics and engineering, professionals successfully use the powerful mathematical tool of optimal control to make management and strategy decisions. Optimal Control Applied to Biological Models thoroughly develops the mathematical aspects of optimal control theory and provides insight into t
Book Synopsis Biomolecular Feedback Systems by : Domitilla Del Vecchio
Download or read book Biomolecular Feedback Systems written by Domitilla Del Vecchio and published by Princeton University Press. This book was released on 2014-10-26 with total page 287 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an accessible introduction to the principles and tools for modeling, analyzing, and synthesizing biomolecular systems. It begins with modeling tools such as reaction-rate equations, reduced-order models, stochastic models, and specific models of important core processes. It then describes in detail the control and dynamical systems tools used to analyze these models. These include tools for analyzing stability of equilibria, limit cycles, robustness, and parameter uncertainty. Modeling and analysis techniques are then applied to design examples from both natural systems and synthetic biomolecular circuits. In addition, this comprehensive book addresses the problem of modular composition of synthetic circuits, the tools for analyzing the extent of modularity, and the design techniques for ensuring modular behavior. It also looks at design trade-offs, focusing on perturbations due to noise and competition for shared cellular resources. Featuring numerous exercises and illustrations throughout, Biomolecular Feedback Systems is the ideal textbook for advanced undergraduates and graduate students. For researchers, it can also serve as a self-contained reference on the feedback control techniques that can be applied to biomolecular systems. Provides a user-friendly introduction to essential concepts, tools, and applications Covers the most commonly used modeling methods Addresses the modular design problem for biomolecular systems Uses design examples from both natural systems and synthetic circuits Solutions manual (available only to professors at press.princeton.edu) An online illustration package is available to professors at press.princeton.edu
Book Synopsis Modeling Methods for Medical Systems Biology by : María Elena Álvarez-Buylla Roces
Download or read book Modeling Methods for Medical Systems Biology written by María Elena Álvarez-Buylla Roces and published by Springer. This book was released on 2018-08-03 with total page 258 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book contributes to better understand how lifestyle modulations can effectively halt the emergence and progression of human diseases. The book will allow the reader to gain a better understanding of the mechanisms by which the environment interferes with the bio-molecular regulatory processes underlying the emergence and progression of complex diseases, such as cancer. Focusing on key and early cellular bio-molecular events giving rise to the emergence of degenerative chronic disease, it builds on previous experience on the development of multi-cellular organisms, to propose a mathematical and computer based framework that allows the reader to analyze the complex interplay between bio-molecular processes and the (micro)-environment from an integrative, mechanistic, quantitative and dynamical perspective. Taking the wealth of empirical evidence that exists it will show how to build and analyze models of core regulatory networks involved in the emergence and progression of chronic degenerative diseases, using a bottom-up approach.
Book Synopsis Systems Evolutionary Biology by : Bor-Sen Chen
Download or read book Systems Evolutionary Biology written by Bor-Sen Chen and published by Academic Press. This book was released on 2018-02-03 with total page 390 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems Evolutionary Biology: Biological Network Evolution Theory, Stochastic Evolutionary Game Strategies, and Applications to Systems Synthetic Biology discusses the evolutionary game theory and strategies of nonlinear stochastic biological networks under random genetic variations and environmental disturbances and their application to systematic synthetic biology design. The book provides more realistic stochastic biological system models to mimic the real biological systems in evolutionary process and then introduces network evolvability, stochastic evolutionary game theory and strategy based on nonlinear stochastic networks in evolution. Readers will find remarkable, revolutionary information on genetic evolutionary biology that be applied to economics, engineering and bioscience. Explains network fitness, network evolvability and network robustness of biological networks from the systematic perspective Discusses the evolutionary noncooperative and cooperative game strategies of biological networks Offers detailed diagrams to help readers understand biological networks, their systematic behaviors and the simulational results of evolutionary biological networks Includes examples in every chapter with computational simulation to illustrate the solution procedure of evolutionary theory, strategy and results
Book Synopsis Introduction to Modeling Biological Cellular Control Systems by : Weijiu Liu
Download or read book Introduction to Modeling Biological Cellular Control Systems written by Weijiu Liu and published by Springer Science & Business Media. This book was released on 2012-04-26 with total page 275 pages. Available in PDF, EPUB and Kindle. Book excerpt: This textbook contains the essential knowledge in modeling, simulation, analysis, and applications in dealing with biological cellular control systems. In particular, the book shows how to use the law of mass balance and the law of mass action to derive an enzyme kinetic model - the Michaelis-Menten function or the Hill function, how to use a current-voltage relation, Nernst potential equilibrium equation, and Hodgkin and Huxley's models to model an ionic channel or pump, and how to use the law of mass balance to integrate these enzyme or channel models into a complete feedback control system. The book also illustrates how to use data to estimate parameters in a model, how to use MATLAB to solve a model numerically, how to do computer simulations, and how to provide model predictions. Furthermore, the book demonstrates how to conduct a stability and sensitivity analysis on a model.
Book Synopsis Control Theory Tutorial by : Steven A. Frank
Download or read book Control Theory Tutorial written by Steven A. Frank and published by Springer. This book was released on 2018-05-29 with total page 112 pages. Available in PDF, EPUB and Kindle. Book excerpt: This open access Brief introduces the basic principles of control theory in a concise self-study guide. It complements the classic texts by emphasizing the simple conceptual unity of the subject. A novice can quickly see how and why the different parts fit together. The concepts build slowly and naturally one after another, until the reader soon has a view of the whole. Each concept is illustrated by detailed examples and graphics. The full software code for each example is available, providing the basis for experimenting with various assumptions, learning how to write programs for control analysis, and setting the stage for future research projects. The topics focus on robustness, design trade-offs, and optimality. Most of the book develops classical linear theory. The last part of the book considers robustness with respect to nonlinearity and explicitly nonlinear extensions, as well as advanced topics such as adaptive control and model predictive control. New students, as well as scientists from other backgrounds who want a concise and easy-to-grasp coverage of control theory, will benefit from the emphasis on concepts and broad understanding of the various approaches. Electronic codes for this title can be downloaded from https://extras.springer.com/?query=978-3-319-91707-8
Book Synopsis Systems Biology by : Bernhard Palsson
Download or read book Systems Biology written by Bernhard Palsson and published by Cambridge University Press. This book was released on 2015-01-26 with total page 551 pages. Available in PDF, EPUB and Kindle. Book excerpt: The first comprehensive single-authored textbook on genome-scale models and the bottom-up approach to systems biology.
Book Synopsis A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations by : Vishwesh V. Kulkarni
Download or read book A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations written by Vishwesh V. Kulkarni and published by Springer. This book was released on 2016-09-18 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: The complexity of biological systems has intrigued scientists from many disciplines and has given birth to the highly influential field of systems biology wherein a wide array of mathematical techniques, such as flux balance analysis, and technology platforms, such as next generation sequencing, is used to understand, elucidate, and predict the functions of complex biological systems. More recently, the field of synthetic biology, i.e., de novo engineering of biological systems, has emerged. Scientists from various fields are focusing on how to render this engineering process more predictable, reliable, scalable, affordable, and easy. Systems and control theory is a branch of engineering and applied sciences that rigorously deals with the complexities and uncertainties of interconnected systems with the objective of characterising fundamental systemic properties such as stability, robustness, communication capacity, and other performance metrics. Systems and control theory also strives to offer concepts and methods that facilitate the design of systems with rigorous guarantees on these properties. Over the last 100 years, it has made stellar theoretical and technological contributions in diverse fields such as aerospace, telecommunication, storage, automotive, power systems, and others. Can it have, or evolve to have, a similar impact in biology? The chapters in this book demonstrate that, indeed, systems and control theoretic concepts and techniques can have a significant impact in systems and synthetic biology. Volume I provides a panoramic view that illustrates the potential of such mathematical methods in systems and synthetic biology. Recent advances in systems and synthetic biology have clearly demonstrated the benefits of a rigorous and systematic approach rooted in the principles of systems and control theory - not only does it lead to exciting insights and discoveries but it also reduces the inordinately lengthy trial-and-error process of wet-lab experimentation, thereby facilitating significant savings in human and financial resources. In Volume I, some of the leading researchers in the field of systems and synthetic biology demonstrate how systems and control theoretic concepts and techniques can be useful, or should evolve to be useful, in order to understand how biological systems function. As the eminent computer scientist Donald Knuth put it, "biology easily has 500 years of exciting problems to work on". This edited book presents but a small fraction of those for the benefit of (1) systems and control theorists interested in molecular and cellular biology and (2) biologists interested in rigorous modelling, analysis and control of biological systems.
Book Synopsis Neural Control Engineering by : Steven J. Schiff
Download or read book Neural Control Engineering written by Steven J. Schiff and published by MIT Press. This book was released on 2022-11-01 with total page 403 pages. Available in PDF, EPUB and Kindle. Book excerpt: How powerful new methods in nonlinear control engineering can be applied to neuroscience, from fundamental model formulation to advanced medical applications. Over the past sixty years, powerful methods of model-based control engineering have been responsible for such dramatic advances in engineering systems as autolanding aircraft, autonomous vehicles, and even weather forecasting. Over those same decades, our models of the nervous system have evolved from single-cell membranes to neuronal networks to large-scale models of the human brain. Yet until recently control theory was completely inapplicable to the types of nonlinear models being developed in neuroscience. The revolution in nonlinear control engineering in the late 1990s has made the intersection of control theory and neuroscience possible. In Neural Control Engineering, Steven Schiff seeks to bridge the two fields, examining the application of new methods in nonlinear control engineering to neuroscience. After presenting extensive material on formulating computational neuroscience models in a control environment—including some fundamentals of the algorithms helpful in crossing the divide from intuition to effective application—Schiff examines a range of applications, including brain-machine interfaces and neural stimulation. He reports on research that he and his colleagues have undertaken showing that nonlinear control theory methods can be applied to models of single cells, small neuronal networks, and large-scale networks in disease states of Parkinson's disease and epilepsy. With Neural Control Engineering the reader acquires a working knowledge of the fundamentals of control theory and computational neuroscience sufficient not only to understand the literature in this trandisciplinary area but also to begin working to advance the field. The book will serve as an essential guide for scientists in either biology or engineering and for physicians who wish to gain expertise in these areas.
