Design And Analysis Of Biomolecular Circuits
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Design And Analysis Of Biomolecular Circuits
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Author : Heinz Koeppl
language : en
Publisher: Springer Science & Business Media
Release Date : 2011-05-21
Design And Analysis Of Biomolecular Circuits written by Heinz Koeppl and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011-05-21 with Technology & Engineering categories.
The book deals with engineering aspects of the two emerging and intertwined fields of synthetic and systems biology. Both fields hold promise to revolutionize the way molecular biology research is done, the way today’s drug discovery works and the way bio-engineering is done. Both fields stress the importance of building and characterizing small bio-molecular networks in order to synthesize incrementally and understand large complex networks inside living cells. Reminiscent of computer-aided design (CAD) of electronic circuits, abstraction is believed to be the key concept to achieve this goal. It allows hiding the overwhelming complexity of cellular processes by encapsulating network parts into abstract modules. This book provides a unique perspective on how concepts and methods from CAD of electronic circuits can be leveraged to overcome complexity barrier perceived in synthetic and systems biology.
Design And Analysis Of Biomolecular Circuits
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Author : Heinz Koeppl
language : en
Publisher:
Release Date : 2011-05-23
Design And Analysis Of Biomolecular Circuits written by Heinz Koeppl and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011-05-23 with categories.
Biomolecular Feedback Systems
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Author : Domitilla Del Vecchio
language : en
Publisher: Princeton University Press
Release Date : 2014-10-26
Biomolecular Feedback Systems written by Domitilla Del Vecchio and has been published by Princeton University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-10-26 with Science categories.
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
Engineering Genetic Circuits
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Author : Chris J. Myers
language : en
Publisher: CRC Press
Release Date : 2018-09-10
Engineering Genetic Circuits written by Chris J. Myers and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-09-10 with Combinational circuits categories.
An Introduction to Systems Bioengineering Takes a Clear and Systematic Engineering Approach to Systems Biology Focusing on genetic regulatory networks, Engineering Genetic Circuits presents the modeling, analysis, and design methods for systems biology. It discusses how to examine experimental data to learn about mathematical models, develop efficient abstraction and simulation methods to analyze these models, and use analytical methods to guide the design of new circuits. After reviewing the basic molecular biology and biochemistry principles needed to understand genetic circuits, the book describes modern experimental techniques and methods for discovering genetic circuit models from the data generated by experiments. The next four chapters present state-of-the-art methods for analyzing these genetic circuit models. The final chapter explores how researchers are beginning to use analytical methods to design synthetic genetic circuits. This text clearly shows how the success of systems biology depends on collaborations between engineers and biologists. From biomolecular observations to mathematical models to circuit design, it provides essential information on genetic circuits and engineering techniques that can be used to study biological systems.
Models Algorithms Logics And Tools
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Author : Luca Aceto
language : en
Publisher: Springer
Release Date : 2017-08-17
Models Algorithms Logics And Tools written by Luca Aceto and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-08-17 with Computers categories.
This Festschrift is published in honor of Kim Guldstrand Larsen, one of the earliest precursors of computer science in Denmark, on the occasion of his 60th birthday. During the last three decades, Kim Guldstrand Larsen has given major contributions across a remarkably wide range of topics, including real-time, concurrent, and probabilistic models of computation, logic in computer science, and model checking. Since 1995, he has been one of the prime movers behind the model checking tool for real-time systems UPPAAL, for which he was a co-recipient of the CAV Award in 2013. The Festschrift contains 32 papers that feature the broad range of Kim Guldstrand Larsen's research topics, such as formal languages and automata theory; logic; verification, model checking and testing; algorithmic game theory and mechanism design; semantics and reasoning; real-time and distributed systems; and modeling and simulation.
Algebraic And Combinatorial Computational Biology
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Author : Raina Robeva
language : en
Publisher: Academic Press
Release Date : 2018-10-08
Algebraic And Combinatorial Computational Biology written by Raina Robeva and has been published by Academic Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-10-08 with Mathematics categories.
Algebraic and Combinatorial Computational Biology introduces students and researchers to a panorama of powerful and current methods for mathematical problem-solving in modern computational biology. Presented in a modular format, each topic introduces the biological foundations of the field, covers specialized mathematical theory, and concludes by highlighting connections with ongoing research, particularly open questions. The work addresses problems from gene regulation, neuroscience, phylogenetics, molecular networks, assembly and folding of biomolecular structures, and the use of clustering methods in biology. A number of these chapters are surveys of new topics that have not been previously compiled into one unified source. These topics were selected because they highlight the use of technique from algebra and combinatorics that are becoming mainstream in the life sciences. - Integrates a comprehensive selection of tools from computational biology into educational or research programs - Emphasizes practical problem-solving through multiple exercises, projects and spinoff computational simulations - Contains scalable material for use in undergraduate and graduate-level classes and research projects - Introduces the reader to freely-available professional software - Supported by illustrative datasets and adaptable computer code
Bioreactor Engineering Research And Industrial Applications I
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Author : Qin Ye
language : en
Publisher: Springer
Release Date : 2016-01-08
Bioreactor Engineering Research And Industrial Applications I written by Qin Ye and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-01-08 with Technology & Engineering categories.
This book review series presents current trends in modern biotechnology. The aim is to cover all aspects of this interdisciplinary technology where knowledge, methods and expertise are required from chemistry, biochemistry, microbiology, genetics, chemical engineering and computer science. Volumes are organized topically and provide a comprehensive discussion of developments in the respective field over the past 3-5 years. The series also discusses new discoveries and applications. Special volumes are dedicated to selected topics which focus on new biotechnological products and new processes for their synthesis and purification. In general, special volumes are edited by well-known guest editors. The series editor and publisher will however always be pleased to receive suggestions and supplementary information. Manuscripts are accepted in English.
Dna Computing And Molecular Programming
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Author : Yannick Rondelez
language : en
Publisher: Springer
Release Date : 2016-08-16
Dna Computing And Molecular Programming written by Yannick Rondelez and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-08-16 with Computers categories.
This book constitutes the refereed proceedings of the 22nd International Conference on DNA Computing and Molecular Programming, DNA 22, held Munich, Germany, in September 16 The 11 full papers presented together with 10 invited and tutorial talks were carefully selected from 55 submissions Research in DNA computing and molecular programming draws together mathematics, computer science, physics, chemistry, biology, and nanotechnology to address the analysis, design, and synthesis of information-based molecular systems
Quantitative Biology
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Author : Brian Munsky
language : en
Publisher: MIT Press
Release Date : 2018-08-21
Quantitative Biology written by Brian Munsky and has been published by MIT Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-08-21 with Science categories.
An introduction to the quantitative modeling of biological processes, presenting modeling approaches, methodology, practical algorithms, software tools, and examples of current research. The quantitative modeling of biological processes promises to expand biological research from a science of observation and discovery to one of rigorous prediction and quantitative analysis. The rapidly growing field of quantitative biology seeks to use biology's emerging technological and computational capabilities to model biological processes. This textbook offers an introduction to the theory, methods, and tools of quantitative biology. The book first introduces the foundations of biological modeling, focusing on some of the most widely used formalisms. It then presents essential methodology for model-guided analyses of biological data, covering such methods as network reconstruction, uncertainty quantification, and experimental design; practical algorithms and software packages for modeling biological systems; and specific examples of current quantitative biology research and related specialized methods. Most chapters offer problems, progressing from simple to complex, that test the reader's mastery of such key techniques as deterministic and stochastic simulations and data analysis. Many chapters include snippets of code that can be used to recreate analyses and generate figures related to the text. Examples are presented in the three popular computing languages: Matlab, R, and Python. A variety of online resources supplement the the text. The editors are long-time organizers of the Annual q-bio Summer School, which was founded in 2007. Through the school, the editors have helped to train more than 400 visiting students in Los Alamos, NM, Santa Fe, NM, San Diego, CA, Albuquerque, NM, and Fort Collins, CO. This book is inspired by the school's curricula, and most of the contributors have participated in the school as students, lecturers, or both. Contributors John H. Abel, Roberto Bertolusso, Daniela Besozzi, Michael L. Blinov, Clive G. Bowsher, Fiona A. Chandra, Paolo Cazzaniga, Bryan C. Daniels, Bernie J. Daigle, Jr., Maciej Dobrzynski, Jonathan P. Doye, Brian Drawert, Sean Fancer, Gareth W. Fearnley, Dirk Fey, Zachary Fox, Ramon Grima, Andreas Hellander, Stefan Hellander, David Hofmann, Damian Hernandez, William S. Hlavacek, Jianjun Huang, Tomasz Jetka, Dongya Jia, Mohit Kumar Jolly, Boris N. Kholodenko, Markek Kimmel, Michał Komorowski, Ganhui Lan, Heeseob Lee, Herbert Levine, Leslie M Loew, Jason G. Lomnitz, Ard A. Louis, Grant Lythe, Carmen Molina-París, Ion I. Moraru, Andrew Mugler, Brian Munsky, Joe Natale, Ilya Nemenman, Karol Nienałtowski, Marco S. Nobile, Maria Nowicka, Sarah Olson, Alan S. Perelson, Linda R. Petzold, Sreenivasan Ponnambalam, Arya Pourzanjani, Ruy M. Ribeiro, William Raymond, William Raymond, Herbert M. Sauro, Michael A. Savageau, Abhyudai Singh, James C. Schaff, Boris M. Slepchenko, Thomas R. Sokolowski, Petr Šulc, Andrea Tangherloni, Pieter Rein ten Wolde, Philipp Thomas, Karen Tkach Tuzman, Lev S. Tsimring, Dan Vasilescu, Margaritis Voliotis, Lisa Weber
Stochastic Dynamics For Systems Biology
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Author : Christian Mazza
language : en
Publisher: CRC Press
Release Date : 2016-04-19
Stochastic Dynamics For Systems Biology written by Christian Mazza and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-04-19 with Mathematics categories.
This is one of the first books to provide a systematic study of the many stochastic models used in systems biology. The book shows how the mathematical models are used as technical tools for simulating biological processes and how the models lead to conceptual insights on the functioning of the cellular processing system. Examples cover the phage lambda genetic switch, eukaryotic gene expression, noise propagation in gene networks, and more. Most of the text should be accessible to scientists with basic knowledge in calculus and probability theory.