Systems Biology and Biotechnology of Escherichia coli

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Publisher : Springer Science & Business Media
ISBN 13 : 1402093942
Total Pages : 471 pages
Book Rating : 4.4/5 (2 download)

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Book Synopsis Systems Biology and Biotechnology of Escherichia coli by : Sang Yup Lee

Download or read book Systems Biology and Biotechnology of Escherichia coli written by Sang Yup Lee and published by Springer Science & Business Media. This book was released on 2009-03-20 with total page 471 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems biology is changing the way biological systems are studied by allowing us to examine the cell and organism as a whole. Systems biotechnology allows optimal design and development of upstream to downstream bioprocesses by taking a systems-approach. E. coli has been a model organism for almost all biological and biotechnological studies. This book brings together for the first time the state-of-the-art reviews by the world-leading experts on systems biology and biotechnological applications of E. coli. The topics covered include genomics and functional genomics, resources for systems biology, network analysis, genome-scale metabolic reconstruction, modelling and simulation, dynamic modelling and simulation, systems-level analysis of evolution, plasmids and expression systems, protein synthesis, production and export, engineering the central metabolism, synthetic biology, and systems metabolic engineering of E. coli. This book provides readers with guidance on how a complex biological system can be studied using E. coli as a model organism. It also presents how to perform synthetic biology and systems metabolic engineering studies on E. coli with successful examples, the approaches of which can be extended to other organisms. This book will be a complete resource for anyone interested in systems biology and biotechnology.

The Science and Applications of Synthetic and Systems Biology

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Publisher : National Academies Press
ISBN 13 : 0309219396
Total Pages : 570 pages
Book Rating : 4.3/5 (92 download)

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Book Synopsis The Science and Applications of Synthetic and Systems Biology by : Institute of Medicine

Download or read book The Science and Applications of Synthetic and Systems Biology written by Institute of Medicine and published by National Academies Press. This book was released on 2011-12-30 with total page 570 pages. Available in PDF, EPUB and Kindle. Book excerpt: Many potential applications of synthetic and systems biology are relevant to the challenges associated with the detection, surveillance, and responses to emerging and re-emerging infectious diseases. On March 14 and 15, 2011, the Institute of Medicine's (IOM's) Forum on Microbial Threats convened a public workshop in Washington, DC, to explore the current state of the science of synthetic biology, including its dependency on systems biology; discussed the different approaches that scientists are taking to engineer, or reengineer, biological systems; and discussed how the tools and approaches of synthetic and systems biology were being applied to mitigate the risks associated with emerging infectious diseases. The Science and Applications of Synthetic and Systems Biology is organized into sections as a topic-by-topic distillation of the presentations and discussions that took place at the workshop. Its purpose is to present information from relevant experience, to delineate a range of pivotal issues and their respective challenges, and to offer differing perspectives on the topic as discussed and described by the workshop participants. This report also includes a collection of individually authored papers and commentary.

Systems Biology

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Publisher : John Wiley & Sons
ISBN 13 : 3527696164
Total Pages : 600 pages
Book Rating : 4.5/5 (276 download)

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Book Synopsis Systems Biology by : Jens Nielsen

Download or read book Systems Biology written by Jens Nielsen and published by John Wiley & Sons. This book was released on 2017-03-21 with total page 600 pages. Available in PDF, EPUB and Kindle. Book excerpt: Comprehensive coverage of the many different aspects of systems biology, resulting in an excellent overview of the experimental and computational approaches currently in use to study biological systems. Each chapter represents a valuable introduction to one specific branch of systems biology, while also including the current state of the art and pointers to future directions. Following different methods for the integrative analysis of omics data, the book goes on to describe techniques that allow for the direct quantification of carbon fluxes in large metabolic networks, including the use of 13C labelled substrates and genome-scale metabolic models. The latter is explained on the basis of the model organism Escherichia coli as well as the human metabolism. Subsequently, the authors deal with the application of such techniques to human health and cell factory engineering, with a focus on recent progress in building genome-scale models and regulatory networks. They highlight the importance of such information for specific biological processes, including the ageing of cells, the immune system and organogenesis. The book concludes with a summary of recent advances in genome editing, which have allowed for precise genetic modifications, even with the dynamic control of gene expression. This is part of the Advances Biotechnology series, covering all pertinent aspects of the field with each volume prepared by eminent scientists who are experts on the topic in question.

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.

An Introduction to Systems Biology

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Publisher : CRC Press
ISBN 13 : 142001143X
Total Pages : 320 pages
Book Rating : 4.4/5 (2 download)

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Book Synopsis An Introduction to Systems Biology by : Uri Alon

Download or read book An Introduction to Systems Biology written by Uri Alon and published by CRC Press. This book was released on 2006-07-07 with total page 320 pages. Available in PDF, EPUB and Kindle. Book excerpt: Thorough and accessible, this book presents the design principles of biological systems, and highlights the recurring circuit elements that make up biological networks. It provides a simple mathematical framework which can be used to understand and even design biological circuits. The textavoids specialist terms, focusing instead on several well-studied biological systems that concisely demonstrate key principles. An Introduction to Systems Biology: Design Principles of Biological Circuits builds a solid foundation for the intuitive understanding of general principles. It encourages the reader to ask why a system is designed in a particular way and then proceeds to answer with simplified models.

Introduction to Systems Biology

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Publisher : Springer Science & Business Media
ISBN 13 : 1597455318
Total Pages : 549 pages
Book Rating : 4.5/5 (974 download)

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Book Synopsis Introduction to Systems Biology by : Sangdun Choi

Download or read book Introduction to Systems Biology written by Sangdun Choi and published by Springer Science & Business Media. This book was released on 2008-05-17 with total page 549 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an introductory text for undergraduate and graduate students who are interested in comprehensive biological systems. The authors offer a broad overview of the field using key examples and typical approaches to experimental design. The volume begins with an introduction to systems biology and then details experimental omics tools. Other sections introduce the reader to challenging computational approaches. The final sections provide ideas for theoretical and modeling optimization in systemic biological researches. The book is an indispensable resource, providing a first glimpse into the state-of-the-art in systems biology.

Microbial Synthetic Biology

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Author :
Publisher : Elsevier
ISBN 13 : 0124171184
Total Pages : 239 pages
Book Rating : 4.1/5 (241 download)

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Book Synopsis Microbial Synthetic Biology by :

Download or read book Microbial Synthetic Biology written by and published by Elsevier. This book was released on 2013-11-06 with total page 239 pages. Available in PDF, EPUB and Kindle. Book excerpt: The 40th volume of Methods in Microbiology focuses on microbial synthetic biology.Synthetic biology is a rapidly growing discipline that builds on well-established principles of genetic engineering and biotechnology by integrating computational and engineering approaches to the design and construction of novel biological systems.This volume addresses some of the major technical challenges stand in the way of achieving a radical step-change in our ability to engineer complex multi-scaled biological systems. These include: the application of computation intelligence to the design of synthetic microbial systems, design automation and constraints; the impact of noise and stochasticity; the engineering of biosensors; the characteristic of a model bacterial chassis. A key issue in Synthetic Biology is that of its social dimensions and a chapter is dedicated to the important issue. Authority or expertise of contributors lLnks to websites for the design and modelling of microbes and microbial metabolism First volume to address the practical issues Discussion on responsible innovation

Systems Metabolic Engineering

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Publisher : Springer Science & Business Media
ISBN 13 : 9400745346
Total Pages : 391 pages
Book Rating : 4.4/5 (7 download)

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Book Synopsis Systems Metabolic Engineering by : Christoph Wittmann

Download or read book Systems Metabolic Engineering written by Christoph Wittmann and published by Springer Science & Business Media. This book was released on 2012-06-15 with total page 391 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems Metabolic Engineering is changing the way microbial cell factories are designed and optimized for industrial production. Integrating systems biology and biotechnology with new concepts from synthetic biology enables the global analysis and engineering of microorganisms and bioprocesses at super efficiency and versatility otherwise not accessible. Without doubt, systems metabolic engineering is a major driver towards bio-based production of chemicals, materials and fuels from renewables and thus one of the core technologies of global green growth. In this book, Christoph Wittmann and Sang-Yup Lee have assembled the world leaders on systems metabolic engineering and cover the full story – from genomes and networks via discovery and design to industrial implementation practises. This book is a comprehensive resource for students and researchers from academia and industry interested in systems metabolic engineering. It provides us with the fundaments to targeted engineering of microbial cells for sustainable bio-production and stimulates those who are interested to enter this exiting research field.

An Introduction to Systems Biology

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Author :
Publisher : CRC Press
ISBN 13 : 1584886420
Total Pages : 324 pages
Book Rating : 4.5/5 (848 download)

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Book Synopsis An Introduction to Systems Biology by : Uri Alon

Download or read book An Introduction to Systems Biology written by Uri Alon and published by CRC Press. This book was released on 2006-07-07 with total page 324 pages. Available in PDF, EPUB and Kindle. Book excerpt: Thorough and accessible, this book presents the design principles of biological systems, and highlights the recurring circuit elements that make up biological networks. It provides a simple mathematical framework which can be used to understand and even design biological circuits. The textavoids specialist terms, focusing instead on several well-studied biological systems that concisely demonstrate key principles. An Introduction to Systems Biology: Design Principles of Biological Circuits builds a solid foundation for the intuitive understanding of general principles. It encourages the reader to ask why a system is designed in a particular way and then proceeds to answer with simplified models.

Biosystems Engineering I

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Publisher : Springer
ISBN 13 : 3642142311
Total Pages : 250 pages
Book Rating : 4.6/5 (421 download)

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Book Synopsis Biosystems Engineering I by : Christoph Wittmann

Download or read book Biosystems Engineering I written by Christoph Wittmann and published by Springer. This book was released on 2010-08-18 with total page 250 pages. Available in PDF, EPUB and Kindle. Book excerpt: -Integration of Systems Biology with Bioprocess Engineering: L-Threonine Production by Systems Metabolic Engineering of Escherichia Coli, By Sang Yup Lee and Jin Hwan Park; -Analysis and Engineering of Metabolic Pathway Fluxes in Corynebacterium glutamicum, By Christoph Wittmann; -Systems Biology of Industrial Microorganisms, Marta Papini, Margarita Salazar, and Jens Nielsen; -De Novo Metabolic Engineering and the Promise of Synthetic DNA, By Daniel Klein-Marcuschamer, Vikramaditya G. Yadav, Adel Ghaderi, and Gregory N. Stephanopoulos; -Systems Biology of Recombinant Protein Production in Bacillus megaterium, Rebekka Biedendieck, Boyke Bunk, Tobias Fürich, Ezequiel Franco-Lara, Martina Jahn, and Dieter Jahn; -Extending Synthetic Routes for Oligosaccharides by Enzyme, Substrate and Reaction Engineering; By Jürgen Seibel, Hans-Joachim Jördening, and Klaus Buchholz; -Regeneration of Nicotinamide Coenzymes: Principles and Applications for the Synthesis of Chiral Compounds; By Andrea Weckbecker, Harald Gröger, and Werner Hummel;

Quantitative Systems Biology for Engineering Organisms and Pathways

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Publisher : Frontiers Media SA
ISBN 13 : 2889198294
Total Pages : 128 pages
Book Rating : 4.8/5 (891 download)

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Book Synopsis Quantitative Systems Biology for Engineering Organisms and Pathways by : Hilal Taymaz-Nikerel

Download or read book Quantitative Systems Biology for Engineering Organisms and Pathways written by Hilal Taymaz-Nikerel and published by Frontiers Media SA. This book was released on 2016-05-27 with total page 128 pages. Available in PDF, EPUB and Kindle. Book excerpt: Studying organisms as a whole for potential metabolic(ally) engineering of organisms for production of (bio)chemicals is essential for industrial biotechnology. To this end, integrative analysis of different –omics measurements (transciptomics, proteomics, metabolomics, fluxomics) provides invaluable information. Combination of experimental top-down and bottom-up approaches with powerful analytical tools/techniques and mathematical modeling, namely (quantitative) systems biology, currently making the state of art of this discipline, is the only practice that would improve our understanding for the purpose. The use of high-throughput technologies induced the required development of many bioinformatics tools and mathematical methods for the integration of obtained data. Such research is significant since compiling information from different levels of a living system and connecting them is not an easy task. In particular, construction of dynamic models for product improvement has been one of the goals of many research groups. In this Research Topic, we summarize and bring a general review of the most recent and relevant contributions in quantitative systems biology applied in metabolic modeling perspective. We want to make special emphasis on the techniques that can be widely implemented in regular scientific laboratories and in those works that include theoretical presentations. With this Research Topic we discuss the importance of applying systems biology approaches for finding metabolic engineering targets for the efficient production of the desired biochemical integrating information from genomes and networks to industrial production. Examples and perspectives in the design of new industrially relevant chemicals, e.g. increased titer/productivity/yield of (bio)chemicals, are welcome. Addition to the founded examples, potential new techniques that would frontier the research will be part of this topic. The significance of multi ‘omics’ approaches to understand/uncover the pathogenesis/mechanisms of metabolic disesases is also one of the main topics.

Biodefense in the Age of Synthetic Biology

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Publisher : National Academies Press
ISBN 13 : 0309465184
Total Pages : 189 pages
Book Rating : 4.3/5 (94 download)

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Book Synopsis Biodefense in the Age of Synthetic Biology by : National Academies of Sciences, Engineering, and Medicine

Download or read book Biodefense in the Age of Synthetic Biology written by National Academies of Sciences, Engineering, and Medicine and published by National Academies Press. This book was released on 2019-01-05 with total page 189 pages. Available in PDF, EPUB and Kindle. Book excerpt: Scientific advances over the past several decades have accelerated the ability to engineer existing organisms and to potentially create novel ones not found in nature. Synthetic biology, which collectively refers to concepts, approaches, and tools that enable the modification or creation of biological organisms, is being pursued overwhelmingly for beneficial purposes ranging from reducing the burden of disease to improving agricultural yields to remediating pollution. Although the contributions synthetic biology can make in these and other areas hold great promise, it is also possible to imagine malicious uses that could threaten U.S. citizens and military personnel. Making informed decisions about how to address such concerns requires a realistic assessment of the capabilities that could be misused. Biodefense in the Age of Synthetic Biology explores and envisions potential misuses of synthetic biology. This report develops a framework to guide an assessment of the security concerns related to advances in synthetic biology, assesses the levels of concern warranted for such advances, and identifies options that could help mitigate those concerns.

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.

Synthetic Biology

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Publisher : Springer
ISBN 13 : 3319027832
Total Pages : 273 pages
Book Rating : 4.3/5 (19 download)

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Book Synopsis Synthetic Biology by : Bernd Giese

Download or read book Synthetic Biology written by Bernd Giese and published by Springer. This book was released on 2014-09-27 with total page 273 pages. Available in PDF, EPUB and Kindle. Book excerpt: Synthetic Biology is already an object of intensive debate. However, to a great extent the discussion to date has been concerned with fundamental ethical, religious and philosophical questions. By contrast, based on an investigation of the field’s scientific and technological character, this book focuses on new functionalities provided by synthetic biology and explores the associated opportunities and risks. Following an introduction to the subject and a discussion of the most central paradigms and methodologies, the book provides an overview of the structure of this field of science and technology. It informs the reader about the current stage of development, as well as topical problems and potential opportunities in important fields of application. But not only the science itself is in focus. In order to investigate its broader impact, ecological as well as ethical implications will be considered, paving the way for a discussion of responsibilities in the context of a field at a transitional crossroads between basic and applied science. In closing, the requirements for a suitable regulatory framework are discussed. The book is intended as a source of information and orientation for researchers, students and practitioners in the natural sciences and technology assessment; for members of scientific and technological, governmental and funding institutions; and for members of the general public interested in essential information on the current status, prospects and implications of synthetic biology.

Systems-Level Modelling of Microbial Communities

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Author :
Publisher : CRC Press
ISBN 13 : 0429946066
Total Pages : 88 pages
Book Rating : 4.4/5 (299 download)

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Book Synopsis Systems-Level Modelling of Microbial Communities by : Aarthi Ravikrishnan

Download or read book Systems-Level Modelling of Microbial Communities written by Aarthi Ravikrishnan and published by CRC Press. This book was released on 2018-09-06 with total page 88 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems-Level Modelling of Microbial Communities: Theory and Practice introduces various aspects of modelling microbial communities and presents a detailed overview of the computational methods which have been developed in this area. This book is aimed at researchers in the field of computational/systems biology as well as biologists/experimentalists studying microbial communities, who are keen on embracing the concepts of computational modelling. The primary focus of this book is on methods for modelling interactions between micro-organisms in a community, with special emphasis on constraint-based and network-based modelling techniques. A brief overview of population- and agent-based modelling is also presented. Lastly, it covers the experimental methods to understand microbial communities, and provides an outlook on how the field may evolve in the coming years.

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

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Author :
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.

Systems Biology

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Author :
Publisher : Oxford University Press
ISBN 13 : 0195345789
Total Pages : 366 pages
Book Rating : 4.1/5 (953 download)

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Book Synopsis Systems Biology by : Isidore Rigoutsos

Download or read book Systems Biology written by Isidore Rigoutsos and published by Oxford University Press. This book was released on 2006-09-14 with total page 366 pages. Available in PDF, EPUB and Kindle. Book excerpt: The advent of genome sequencing and associated technologies has transformed biologists' ability to measure important classes of molecules and their interactions. This expanded cellular view has opened the field to thousands of interactions that previously were outside the researchers' reach. The processing and interpretation of these new vast quantities of interconnected data call for sophisticated mathematical models and computational methods. Systems biology meets this need by combining genomic knowledge with theoretical, experimental and computational approaches from a number of traditional scientific disciplines to create a mechanistic explanation of cellular systems and processes. Systems Biology I: Genomics and Systems Biology II: Networks, Models, and Applications offer a much-needed study of genomic principles and their associated networks and models. Written for a wide audience, each volume presents a timely compendium of essential information that is necessary for a comprehensive study of the subject. The chapters in the two volumes reflect the hierarchical nature of systems biology. Chapter authors-world-recognized experts in their fields-provide authoritative discussions on a wide range of topics along this hierarchy. Volume I explores issues pertaining to genomics that range from prebiotic chemistry to noncoding RNAs. Volume II covers an equally wide spectrum, from mass spectrometry to embryonic stem cells. The two volumes are meant to provide a reliable reference for students and researchers alike.