A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations

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Publisher : Springer
ISBN 13 : 9401790418
Total Pages : 332 pages
Book Rating : 4.4/5 (17 download)

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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 2014-07-03 with total page 332 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.

A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations

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Author :
Publisher : Springer
ISBN 13 : 9789401790406
Total Pages : 0 pages
Book Rating : 4.7/5 (94 download)

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Book Synopsis A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations by : Vishwesh Kulkarni

Download or read book A Systems Theoretic Approach to Systems and Synthetic Biology I: Models and System Characterizations written by Vishwesh Kulkarni and published by Springer. This book was released on 2014-07-16 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.

A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems

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Publisher : Springer
ISBN 13 : 9401790477
Total Pages : 298 pages
Book Rating : 4.4/5 (17 download)

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Book Synopsis A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems by : Vishwesh V. Kulkarni

Download or read book A Systems Theoretic Approach to Systems and Synthetic Biology II: Analysis and Design of Cellular Systems written by Vishwesh V. Kulkarni and published by Springer. This book was released on 2014-07-03 with total page 298 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 II contains chapters contributed by leading researchers in the field of systems and synthetic biology that concern modeling physiological processes and bottom-up constructions of scalable biological systems. The modeling problems include characterisation and synthesis of memory, understanding how homoeostasis is maintained in the face of shocks and relatively gradual perturbations, understanding the functioning and robustness of biological clocks such as those at the core of circadian rhythms, and understanding how the cell cycles can be regulated, among others. Some of the bottom-up construction problems investigated in Volume II are as follows: How should biomacromolecules, platforms, and scalable architectures be chosen and synthesised in order to build programmable de novo biological systems? What are the types of constrained optimisation problems encountered in this process and how can these be solved efficiently? 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.

Synthetic Biology - a Primer (revised Edition)

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Author :
Publisher : World Scientific
ISBN 13 : 1783268808
Total Pages : 194 pages
Book Rating : 4.7/5 (832 download)

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Book Synopsis Synthetic Biology - a Primer (revised Edition) by : Paul S. FREEMONT

Download or read book Synthetic Biology - a Primer (revised Edition) written by Paul S. FREEMONT and published by World Scientific. This book was released on 2015-08-24 with total page 194 pages. Available in PDF, EPUB and Kindle. Book excerpt: Synthetic Biology -- A Primer (Revised Edition) presents an updated overview of the field of synthetic biology and the foundational concepts on which it is built. This revised edition includes new literature references, working and updated URL links, plus some new figures and text where progress in the field has been made.The book introduces readers to fundamental concepts in molecular biology and engineering and then explores the two major themes for synthetic biology, namely 'bottom-up' and 'top-down' engineering approaches. 'Top-down' engineering uses a conceptual framework of systematic design and engineering principles focused around the Design-Build-Test cycle and mathematical modelling. The 'bottom-up' approach involves the design and building of synthetic protocells using basic chemical and biochemical building blocks from scratch exploring the fundamental basis of living systems.Examples of cutting-edge applications designed using synthetic biology principles are presented, including: The book also describes the Internationally Genetically Engineered Machine (iGEM) competition, which brings together students and young researchers from around the world to carry out summer projects in synthetic biology. Finally, the primer includes a chapter on the ethical, legal and societal issues surrounding synthetic biology, illustrating the integration of social sciences into synthetic biology research.Final year undergraduates, postgraduates and established researchers interested in learning about the interdisciplinary field of synthetic biology will benefit from this up-to-date primer on synthetic biology.

Systems and Synthetic Biology

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Publisher : Springer
ISBN 13 : 9401795142
Total Pages : 385 pages
Book Rating : 4.4/5 (17 download)

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Book Synopsis Systems and Synthetic Biology by : Vikram Singh

Download or read book Systems and Synthetic Biology written by Vikram Singh and published by Springer. This book was released on 2014-12-15 with total page 385 pages. Available in PDF, EPUB and Kindle. Book excerpt: This textbook has been conceptualized to provide a detailed description of the various aspects of Systems and Synthetic Biology, keeping the requirements of M.Sc. and Ph.D. students in mind. Also, it is hoped that this book will mentor young scientists who are willing to contribute to this area but do not know from where to begin. The book has been divided into two sections. The first section will deal with systems biology – in terms of the foundational understanding, highlighting issues in biological complexity, methods of analysis and various aspects of modelling. The second section deals with the engineering concepts, design strategies of the biological systems ranging from simple DNA/RNA fragments, switches and oscillators, molecular pathways to a complete synthetic cell will be described. Finally, the book will offer expert opinions in legal, safety, security and social issues to present a well-balanced information both for students and scientists.

Membrane Computing

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Publisher : Springer
ISBN 13 : 3319540726
Total Pages : 363 pages
Book Rating : 4.3/5 (195 download)

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Book Synopsis Membrane Computing by : Alberto Leporati

Download or read book Membrane Computing written by Alberto Leporati and published by Springer. This book was released on 2017-02-21 with total page 363 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book contains revised selected papers from the 17th International Conference on Membrane Computing, CMC 2017, held in Milan, Italy, in July 2016. The 19 full papers presented in this volume were carefully reviewed and selected from 28 submissions. They deal with membrane computing (P systems theory), an area of copmputer science aiming to abstract computing ideas and models from the structure and the functioning of living cells, as well as from the way the cells are organized in tissues or higher order structures. The volume also contains 3 invited talks in full-paper length.

SOFSEM 2018: Theory and Practice of Computer Science

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Publisher : Springer
ISBN 13 : 3319731173
Total Pages : 698 pages
Book Rating : 4.3/5 (197 download)

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Book Synopsis SOFSEM 2018: Theory and Practice of Computer Science by : A Min Tjoa

Download or read book SOFSEM 2018: Theory and Practice of Computer Science written by A Min Tjoa and published by Springer. This book was released on 2018-01-12 with total page 698 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 44th International Conference on Current Trends in Theory and Practice of Computer Science, SOFSEM 2018, held in Krems, Austria, in January/February 2018. The 48 papers presented in this volume were carefully reviewed and selected from 97 submissions. They were organized in topical sections named: foundations of computer science; software engineering: advances methods, applications, and tools; data, information and knowledge engineering; network science and parameterized complexity; model-based software engineering; computational models and complexity; software quality assurance and transformation; graph structure and computation; business processes, protocols, and mobile networks; mobile robots and server systems; automata, complexity, completeness; recognition and generation; optimization, probabilistic analysis, and sorting; filters, configurations, and picture encoding; machine learning; text searching algorithms; and data model engineering.

Principles of Modeling

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Publisher : Springer
ISBN 13 : 3319952463
Total Pages : 539 pages
Book Rating : 4.3/5 (199 download)

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Book Synopsis Principles of Modeling by : Marten Lohstroh

Download or read book Principles of Modeling written by Marten Lohstroh and published by Springer. This book was released on 2018-07-19 with total page 539 pages. Available in PDF, EPUB and Kindle. Book excerpt: This Festschrift is published in honor of Edward A. Lee, Robert S. Pepper Distinguished Professor Emeritus and Professor in the Graduate School in the Department of Electrical Engineering and Computer Sciences at the University of California, Berkeley, USA, on the occasion of his 60th birthday. The title of this Festschrift is “Principles of Modeling" because Edward A. Lee has long been devoted to research that centers on the role of models in science and engineering. He has been examining the use and limitations of models, their formal properties, their role in cognition and interplay with creativity, and their ability to represent reality and physics. The Festschrift contains 29 papers that feature the broad range of Edward A. Lee’s research topics; such as embedded systems; real-time computing; computer architecture; modeling and simulation, and systems design.

Handbook of Neuroengineering

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Publisher : Springer Nature
ISBN 13 : 9811655405
Total Pages : 3686 pages
Book Rating : 4.8/5 (116 download)

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Book Synopsis Handbook of Neuroengineering by : Nitish V. Thakor

Download or read book Handbook of Neuroengineering written by Nitish V. Thakor and published by Springer Nature. This book was released on 2023-02-02 with total page 3686 pages. Available in PDF, EPUB and Kindle. Book excerpt: This Handbook serves as an authoritative reference book in the field of Neuroengineering. Neuroengineering is a very exciting field that is rapidly getting established as core subject matter for research and education. The Neuroengineering field has also produced an impressive array of industry products and clinical applications. It also serves as a reference book for graduate students, research scholars and teachers. Selected sections or a compendium of chapters may be used as “reference book” for a one or two semester graduate course in Biomedical Engineering. Some academicians will construct a “textbook” out of selected sections or chapters. The Handbook is also meant as a state-of-the-art volume for researchers. Due to its comprehensive coverage, researchers in one field covered by a certain section of the Handbook would find other sections valuable sources of cross-reference for information and fertilization of interdisciplinary ideas. Industry researchers as well as clinicians using neurotechnologies will find the Handbook a single source for foundation and state-of-the-art applications in the field of Neuroengineering. Regulatory agencies, entrepreneurs, investors and legal experts can use the Handbook as a reference for their professional work as well.​

Systems Biology and Synthetic Biology

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Publisher : John Wiley & Sons
ISBN 13 : 9780470437971
Total Pages : 672 pages
Book Rating : 4.4/5 (379 download)

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Book Synopsis Systems Biology and Synthetic Biology by : Pengcheng Fu

Download or read book Systems Biology and Synthetic Biology written by Pengcheng Fu and published by John Wiley & Sons. This book was released on 2009-08-13 with total page 672 pages. Available in PDF, EPUB and Kindle. Book excerpt: The genomic revolution has opened up systematic investigations and engineering designs for various life forms. Systems biology and synthetic biology are emerging as two complementary approaches, which embody the breakthrough in biology and invite application of engineering principles. Systems Biology and Synthetic Biology emphasizes the similarity between biology and engineering at the system level, which is important for applying systems and engineering theories to biology problems. This book demonstrates to students, researchers, and industry that systems biology relies on synthetic biology technologies to study biological systems, while synthetic biology depends on knowledge obtained from systems biology approaches.

Systems Synthetic Biology

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Publisher : Nova Science Publishers
ISBN 13 : 9781536105261
Total Pages : 280 pages
Book Rating : 4.1/5 (52 download)

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Book Synopsis Systems Synthetic Biology by : Bor-Sen Chen

Download or read book Systems Synthetic Biology written by Bor-Sen Chen and published by Nova Science Publishers. This book was released on 2017 with total page 280 pages. Available in PDF, EPUB and Kindle. Book excerpt: Prof. Chen received the Ph.D degree from the University of Southern California in 1982. He was a professor at National Tsing Hua University and became a distinguished chair professor in 2014. He is a life fellow of IEEE. He has published about 300 journal papers in control, signal processing, communication, systems and synthetic biology. Dr. Hsu received his Ph.D degree form National Tsing Hua University in 2015. Book Description: In this book, the synthetic gene circuits are modeled by nonlinear stochastic systems to consider random genetic variations and random in vivo environmental disturbances. The authors' design purpose is to engineer a robust genetic circuit to achieve a desired behavior or product to tolerate intrinsic random fluctuation and environmental disturbance in the host cell. In this book, the authors first construct several promoter-RBS component libraries according to their regulatory strengths. Then, based on a stochastic system model, they use design biological filters, biological transistor biosensors, genetic lysis circuits, and a genetic transmitter and receiver by selecting adequate promoter-RBS components from their corresponding libraries to meet the prescribed design (user-oriented) specifications through the proposed library-based researching method. These synthetic gene circuits are also implemented by real experiments to confirm their design performance in this book. Based on the purposed synthetic design method, we could achieve these design specifications at one time, saving much trial time by the conventional methods. Therefore, the purposed systematic design methods in this book have many potential applications to more complex gene circuit design of systems synthetic biology in the future.

Foundations of Theoretical Approaches in Systems Biology

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Publisher : Frontiers Media SA
ISBN 13 : 2889456838
Total Pages : 216 pages
Book Rating : 4.8/5 (894 download)

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Book Synopsis Foundations of Theoretical Approaches in Systems Biology by : Alberto Marin-Sanguino

Download or read book Foundations of Theoretical Approaches in Systems Biology written by Alberto Marin-Sanguino and published by Frontiers Media SA. This book was released on 2019-01-11 with total page 216 pages. Available in PDF, EPUB and Kindle. Book excerpt: If biology in the 20th century was characterized by an explosion of new technologies and experimental methods, that of the 21st has seen an equally exuberant proliferation of mathematical and computational methods that attempt to systematize and explain the abundance of available data. As we live through the consolidation of a new paradigm where experimental data goes hand in hand with computational analysis, we contemplate the challenge of fusing these two aspects of the new biology into a consistent theoretical framework. Whether systems biology will survive as a field or be washed away by the tides of future fads will ultimately depend on its success to achieve this type of synthesis. The famous quote attributed to Kurt Lewin comes to mind: "there is nothing more practical than a good theory". This book presents a wide assortment of articles on systems biology in an attempt to capture the variety of current methods in systems biology and show how they can help to find answers to the challenges of modern biology.

Control Theory and Systems Biology

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Publisher : MIT Press
ISBN 13 : 0262013347
Total Pages : 359 pages
Book Rating : 4.2/5 (62 download)

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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.

The Koopman Operator in Systems and Control

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Publisher : Springer Nature
ISBN 13 : 3030357139
Total Pages : 568 pages
Book Rating : 4.0/5 (33 download)

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Book Synopsis The Koopman Operator in Systems and Control by : Alexandre Mauroy

Download or read book The Koopman Operator in Systems and Control written by Alexandre Mauroy and published by Springer Nature. This book was released on 2020-02-22 with total page 568 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides a broad overview of state-of-the-art research at the intersection of the Koopman operator theory and control theory. It also reviews novel theoretical results obtained and efficient numerical methods developed within the framework of Koopman operator theory. The contributions discuss the latest findings and techniques in several areas of control theory, including model predictive control, optimal control, observer design, systems identification and structural analysis of controlled systems, addressing both theoretical and numerical aspects and presenting open research directions, as well as detailed numerical schemes and data-driven methods. Each contribution addresses a specific problem. After a brief introduction of the Koopman operator framework, including basic notions and definitions, the book explores numerical methods, such as the dynamic mode decomposition (DMD) algorithm and Arnoldi-based methods, which are used to represent the operator in a finite-dimensional basis and to compute its spectral properties from data. The main body of the book is divided into three parts: theoretical results and numerical techniques for observer design, synthesis analysis, stability analysis, parameter estimation, and identification; data-driven techniques based on DMD, which extract the spectral properties of the Koopman operator from data for the structural analysis of controlled systems; and Koopman operator techniques with specific applications in systems and control, which range from heat transfer analysis to robot control. A useful reference resource on the Koopman operator theory for control theorists and practitioners, the book is also of interest to graduate students, researchers, and engineers looking for an introduction to a novel and comprehensive approach to systems and control, from pure theory to data-driven methods.

Philosophy of Systems Biology

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Publisher : Springer
ISBN 13 : 3319470000
Total Pages : 265 pages
Book Rating : 4.3/5 (194 download)

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Book Synopsis Philosophy of Systems Biology by : Sara Green

Download or read book Philosophy of Systems Biology written by Sara Green and published by Springer. This book was released on 2016-12-15 with total page 265 pages. Available in PDF, EPUB and Kindle. Book excerpt: The emergence of systems biology raises many fascinating questions: What does it mean to take a systems approach to problems in biology? To what extent is the use of mathematical and computational modelling changing the life sciences? How does the availability of big data influence research practices? What are the major challenges for biomedical research in the years to come? This book addresses such questions of relevance not only to philosophers and biologists but also to readers interested in the broader implications of systems biology for science and society. The book features reflections and original work by experts from across the disciplines including systems biologists, philosophers, and interdisciplinary scholars investigating the social and educational aspects of systems biology. In response to the same set of questions, the experts develop and defend their personal perspectives on the distinctive character of systems biology and the challenges that lie ahead. Readers are invited to engage with different views on the questions addressed, and may explore numerous themes relating to the philosophy of systems biology. This edited work will appeal to scholars and all levels, from undergraduates to researchers, and to those interested in a variety of scholarly approaches such as systems biology, mathematical and computational modelling, cell and molecular biology, genomics, systems theory, and of course, philosophy of biology.

Fundamentals of Systems Biology

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Publisher : CRC Press
ISBN 13 : 1498728472
Total Pages : 367 pages
Book Rating : 4.4/5 (987 download)

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Book Synopsis Fundamentals of Systems Biology by : Markus W. Covert

Download or read book Fundamentals of Systems Biology written by Markus W. Covert and published by CRC Press. This book was released on 2017-10-19 with total page 367 pages. Available in PDF, EPUB and Kindle. Book excerpt: For decades biology has focused on decoding cellular processes one gene at a time, but many of the most pressing biological questions, as well as diseases such as cancer and heart disease, are related to complex systems involving the interaction of hundreds, or even thousands, of gene products and other factors. How do we begin to understand this complexity? Fundamentals of Systems Biology: From Synthetic Circuits to Whole-cell Models introduces students to methods they can use to tackle complex systems head-on, carefully walking them through studies that comprise the foundation and frontier of systems biology. The first section of the book focuses on bringing students quickly up to speed with a variety of modeling methods in the context of a synthetic biological circuit. This innovative approach builds intuition about the strengths and weaknesses of each method and becomes critical in the book’s second half, where much more complicated network models are addressed—including transcriptional, signaling, metabolic, and even integrated multi-network models. The approach makes the work much more accessible to novices (undergraduates, medical students, and biologists new to mathematical modeling) while still having much to offer experienced modelers--whether their interests are microbes, organs, whole organisms, diseases, synthetic biology, or just about any field that investigates living systems.

Cell-Free Synthetic Biology

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Author :
Publisher : Frontiers Media SA
ISBN 13 : 2889740803
Total Pages : 205 pages
Book Rating : 4.8/5 (897 download)

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Book Synopsis Cell-Free Synthetic Biology by : Jian Li

Download or read book Cell-Free Synthetic Biology written by Jian Li and published by Frontiers Media SA. This book was released on 2022-01-13 with total page 205 pages. Available in PDF, EPUB and Kindle. Book excerpt: