Systems Biology Simulation Of Dynamic Network States
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Systems Biology Simulation Of Dynamic Network States
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Author : Bernhard Ø. Palsson
language : en
Publisher: Cambridge University Press
Release Date : 2011-05-26
Systems Biology Simulation Of Dynamic Network States written by Bernhard Ø. Palsson and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011-05-26 with Science categories.
Biophysical models have been used in biology for decades, but they have been limited in scope and size. In this book, Bernhard Ø. Palsson shows how network reconstructions that are based on genomic and bibliomic data, and take the form of established stoichiometric matrices, can be converted into dynamic models using metabolomic and fluxomic data. The Mass Action Stoichiometric Simulation (MASS) procedure can be used for any cellular process for which data is available and allows a scalable step-by-step approach to the practical construction of network models. Specifically, it can treat integrated processes that need explicit accounting of small molecules and protein, which allows simulation at the molecular level. The material has been class-tested by the author at both the undergraduate and graduate level. All computations in the text are available online in MATLAB® and Mathematica® workbooks, allowing hands-on practice with the material.
Systems Biology
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Author : Bernhard Palsson
language : en
Publisher:
Release Date : 2011
Systems Biology written by Bernhard Palsson and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2011 with Bioinformatics categories.
Master the process of building MASS models with real examples and hands-on practice.
An Introduction To Computational Systems Biology
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Author : Karthik Raman
language : en
Publisher: CRC Press
Release Date : 2021-05-30
An Introduction To Computational Systems Biology written by Karthik Raman and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-05-30 with Computers categories.
Emphasises a hands-on approach to modelling Strong emphasis on coding and software tools for systems biology Covers the entire spectrum of modelling, from static networks, to dynamic models Thoughtful exercises to test and enable student understanding of concepts Current chapters on exciting new developments like whole-cell modelling and community modelling
Systems Biology
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Author : Marvin Cassman
language : en
Publisher: Springer Science & Business Media
Release Date : 2007-05-16
Systems Biology written by Marvin Cassman 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 2007-05-16 with Mathematics categories.
This book explores Systems Biology as the understanding of biological network behaviors, and in particular their dynamic aspects, which requires the utilization of mathematical modeling tightly linked to experiment. A variety of approaches are discussed here: the identification and validation of networks, the creation of appropriate datasets, the development of tools for data acquisition and software development, and the use of modeling and simulation software in close concert with experiment.
Simulation Algorithms For Computational Systems Biology
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Author : Luca Marchetti
language : en
Publisher: Springer
Release Date : 2017-09-27
Simulation Algorithms For Computational Systems Biology written by Luca Marchetti and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-09-27 with Computers categories.
This book explains the state-of-the-art algorithms used to simulate biological dynamics. Each technique is theoretically introduced and applied to a set of modeling cases. Starting from basic simulation algorithms, the book also introduces more advanced techniques that support delays, diffusion in space, or that are based on hybrid simulation strategies. This is a valuable self-contained resource for graduate students and practitioners in computer science, biology and bioinformatics. An appendix covers the mathematical background, and the authors include further reading sections in each chapter.
Networks In Systems Biology
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Author : Fabricio Alves Barbosa da Silva
language : en
Publisher: Springer Nature
Release Date : 2020-10-03
Networks In Systems Biology written by Fabricio Alves Barbosa da Silva and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-10-03 with Computers categories.
This book presents a range of current research topics in biological network modeling, as well as its application in studies on human hosts, pathogens, and diseases. Systems biology is a rapidly expanding field that involves the study of biological systems through the mathematical modeling and analysis of large volumes of biological data. Gathering contributions from renowned experts in the field, some of the topics discussed in depth here include networks in systems biology, the computational modeling of multidrug-resistant bacteria, and systems biology of cancer. Given its scope, the book is intended for researchers, advanced students, and practitioners of systems biology. The chapters are research-oriented, and present some of the latest findings on their respective topics.
Systems Biology
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Author : Marvin Cassman
language : en
Publisher: Springer
Release Date : 2009-09-03
Systems Biology written by Marvin Cassman and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-09-03 with Mathematics categories.
This book explores Systems Biology as the understanding of biological network behaviors, and in particular their dynamic aspects, which requires the utilization of mathematical modeling tightly linked to experiment. A variety of approaches are discussed here: the identification and validation of networks, the creation of appropriate datasets, the development of tools for data acquisition and software development, and the use of modeling and simulation software in close concert with experiment.
Probabilistic Boolean Networks
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Author : Ilya Shmulevich
language : en
Publisher: SIAM
Release Date : 2010-01-01
Probabilistic Boolean Networks written by Ilya Shmulevich and has been published by SIAM this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-01-01 with Mathematics categories.
This is the first comprehensive treatment of probabilistic Boolean networks (PBNs), an important model class for studying genetic regulatory networks. This book covers basic model properties, including the relationships between network structure and dynamics, steady-state analysis, and relationships to other model classes." "Researchers in mathematics, computer science, and engineering are exposed to important applications in systems biology and presented with ample opportunities for developing new approaches and methods. The book is also appropriate for advanced undergraduates, graduate students, and scientists working in the fields of computational biology, genomic signal processing, control and systems theory, and computer science.
Computational Systems Biology
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Author : Reinhard Laubenbacher
language : en
Publisher: Elsevier Inc. Chapters
Release Date : 2013-11-26
Computational Systems Biology written by Reinhard Laubenbacher and has been published by Elsevier Inc. Chapters this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013-11-26 with Medical categories.
Mathematical and statistical network modeling is an important step toward uncovering the organizational principles and dynamic behavior of biological networks. This chapter focuses on methods to construct discrete dynamic models of gene regulatory networks from experimental data sets, also sometimes referred to as top-down modeling or reverse engineering. Time-discrete dynamical systems models have long been used in biology, particularly in population dynamics. The models mainly focused on here are also assumed to have a finite set of possible states for each variable. That is, the modeling framework discussed in this chapter is that of time-discrete dynamical systems over a finite state set.
Systems Biology
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Author : Bernhard Palsson
language : en
Publisher: Cambridge University Press
Release Date : 2015-01-26
Systems Biology written by Bernhard Palsson and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2015-01-26 with Medical categories.
The first comprehensive single-authored textbook on genome-scale models and the bottom-up approach to systems biology.