Modeling Biomolecular Networks In Cells eBook Download PDF

Download Modeling Biomolecular Networks In Cells full books in PDF, epub, and Kindle. Read online Modeling Biomolecular Networks In Cells ebook anywhere anytime directly on your device. Fast Download speed and no annoying ads. We cannot guarantee that every ebooks is available!

Modeling Biomolecular Networks in Cells

Author: Luonan Chen

Publisher: Springer Science & Business Media

Published: 2010-07-05

Total Pages: 343

ISBN-13: 1849962146

DOWNLOAD EBOOK

Modeling Biomolecular Networks in Cells shows how the interaction between the molecular components of basic living organisms can be modelled mathematically and the models used to create artificial biological entities within cells. Such forward engineering is a difficult task but the nonlinear dynamical methods espoused in this book simplify the biology so that it can be successfully understood and the synthesis of simple biological oscillators and rhythm-generators made feasible. Such simple units can then be co-ordinated using intercellular signal biomolecules. The formation of such man-made multicellular networks with a view to the production of biosensors, logic gates, new forms of integrated circuitry based on "gene-chips" and even biological computers is an important step in the design of faster and more flexible "electronics". The book also provides theoretical frameworks and tools with which to analyze the nonlinear dynamical phenomena which arise from the connection of building units in a biomolecular network.

Book Synopsis Modeling Biomolecular Networks in Cells by : Luonan Chen

Download or read book Modeling Biomolecular Networks in Cells written by Luonan Chen and published by Springer Science & Business Media. This book was released on 2010-07-05 with total page 343 pages. Available in PDF, EPUB and Kindle. Book excerpt: Modeling Biomolecular Networks in Cells shows how the interaction between the molecular components of basic living organisms can be modelled mathematically and the models used to create artificial biological entities within cells. Such forward engineering is a difficult task but the nonlinear dynamical methods espoused in this book simplify the biology so that it can be successfully understood and the synthesis of simple biological oscillators and rhythm-generators made feasible. Such simple units can then be co-ordinated using intercellular signal biomolecules. The formation of such man-made multicellular networks with a view to the production of biosensors, logic gates, new forms of integrated circuitry based on "gene-chips" and even biological computers is an important step in the design of faster and more flexible "electronics". The book also provides theoretical frameworks and tools with which to analyze the nonlinear dynamical phenomena which arise from the connection of building units in a biomolecular network.

Biomolecular Networks

Author: Luonan Chen

Publisher: John Wiley & Sons

Published: 2009-06-29

Total Pages: 416

ISBN-13: 9780470488058

DOWNLOAD EBOOK

Alternative techniques and tools for analyzing biomolecular networks With the recent rapid advances in molecular biology, high-throughput experimental methods have resulted in enormous amounts of data that can be used to study biomolecular networks in living organisms. With this development has come recognition of the fact that a complicated living organism cannot be fully understood by merely analyzing individual components. Rather, it is the interactions of components or biomolecular networks that are ultimately responsible for an organism's form and function. This book addresses the important need for a new set of computational tools to reveal essential biological mechanisms from a systems biology approach. Readers will get comprehensive coverage of analyzing biomolecular networks in cellular systems based on available experimental data with an emphasis on the aspects of network, system, integration, and engineering. Each topic is treated in depth with specific biological problems and novel computational methods: GENE NETWORKS—Transcriptional regulation; reconstruction of gene regulatory networks; and inference of transcriptional regulatory networks PROTEIN INTERACTION NETWORKS—Prediction of protein-protein interactions; topological structure of biomolecular networks; alignment of biomolecular networks; and network-based prediction of protein function METABOLIC NETWORKS AND SIGNALING NETWORKS—Analysis, reconstruction, and applications of metabolic networks; modeling and inference of signaling networks; and other topics and new trends In addition to theoretical results and methods, many computational software tools are referenced and available from the authors' Web sites. Biomolecular Networks is an indispensable reference for researchers and graduate students in bioinformatics, computational biology, systems biology, computer science, and applied mathematics.

Book Synopsis Biomolecular Networks by : Luonan Chen

Download or read book Biomolecular Networks written by Luonan Chen and published by John Wiley & Sons. This book was released on 2009-06-29 with total page 416 pages. Available in PDF, EPUB and Kindle. Book excerpt: Alternative techniques and tools for analyzing biomolecular networks With the recent rapid advances in molecular biology, high-throughput experimental methods have resulted in enormous amounts of data that can be used to study biomolecular networks in living organisms. With this development has come recognition of the fact that a complicated living organism cannot be fully understood by merely analyzing individual components. Rather, it is the interactions of components or biomolecular networks that are ultimately responsible for an organism's form and function. This book addresses the important need for a new set of computational tools to reveal essential biological mechanisms from a systems biology approach. Readers will get comprehensive coverage of analyzing biomolecular networks in cellular systems based on available experimental data with an emphasis on the aspects of network, system, integration, and engineering. Each topic is treated in depth with specific biological problems and novel computational methods: GENE NETWORKS—Transcriptional regulation; reconstruction of gene regulatory networks; and inference of transcriptional regulatory networks PROTEIN INTERACTION NETWORKS—Prediction of protein-protein interactions; topological structure of biomolecular networks; alignment of biomolecular networks; and network-based prediction of protein function METABOLIC NETWORKS AND SIGNALING NETWORKS—Analysis, reconstruction, and applications of metabolic networks; modeling and inference of signaling networks; and other topics and new trends In addition to theoretical results and methods, many computational software tools are referenced and available from the authors' Web sites. Biomolecular Networks is an indispensable reference for researchers and graduate students in bioinformatics, computational biology, systems biology, computer science, and applied mathematics.

Modeling Biomolecular Networks

Author: Anirvan M. Sengupta

Publisher:

Published: 2008

Total Pages: 208

ISBN-13: 9780198568049

DOWNLOAD EBOOK

This book describes the essentials of a mathematical description of the dynamics of biochemical networks. It covers both deterministic and stochastic aspects of the dynamics. After providing a brief introduction to basic molecular biology, the book describes fundamentals of chemical kinetics. The chapter on signal transduction makes contact with ideas from feedback circuit analysis and signal processing. The chapter on switches and oscillators analyses in detail biological examples, both natural and synthetic. Excitable systems are introduced and contrasted with oscillators. The last chapter deals with pattern formation and development and brings us to current questions of robustness of performance of developmental networks. The book provides brief introductions to some of the mathematical tools required in the main text and in a dedicated appendix. The emphasis, throughout, is on understanding of the essential dynamical aspects rather than just on recipes to build complex models.

Book Synopsis Modeling Biomolecular Networks by : Anirvan M. Sengupta

Download or read book Modeling Biomolecular Networks written by Anirvan M. Sengupta and published by . This book was released on 2008 with total page 208 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book describes the essentials of a mathematical description of the dynamics of biochemical networks. It covers both deterministic and stochastic aspects of the dynamics. After providing a brief introduction to basic molecular biology, the book describes fundamentals of chemical kinetics. The chapter on signal transduction makes contact with ideas from feedback circuit analysis and signal processing. The chapter on switches and oscillators analyses in detail biological examples, both natural and synthetic. Excitable systems are introduced and contrasted with oscillators. The last chapter deals with pattern formation and development and brings us to current questions of robustness of performance of developmental networks. The book provides brief introductions to some of the mathematical tools required in the main text and in a dedicated appendix. The emphasis, throughout, is on understanding of the essential dynamical aspects rather than just on recipes to build complex models.

Models and Algorithms for Biomolecules and Molecular Networks

Author: Bhaskar DasGupta

Publisher: John Wiley & Sons

Published: 2016-01-06

Total Pages: 264

ISBN-13: 1119162262

DOWNLOAD EBOOK

By providing expositions to modeling principles, theories, computational solutions, and open problems, this reference presents a full scope on relevant biological phenomena, modeling frameworks, technical challenges, and algorithms. Up-to-date developments of structures of biomolecules, systems biology, advanced models, and algorithms Sampling techniques for estimating evolutionary rates and generating molecular structures Accurate computation of probability landscape of stochastic networks, solving discrete chemical master equations End-of-chapter exercises

Book Synopsis Models and Algorithms for Biomolecules and Molecular Networks by : Bhaskar DasGupta

Download or read book Models and Algorithms for Biomolecules and Molecular Networks written by Bhaskar DasGupta and published by John Wiley & Sons. This book was released on 2016-01-06 with total page 264 pages. Available in PDF, EPUB and Kindle. Book excerpt: By providing expositions to modeling principles, theories, computational solutions, and open problems, this reference presents a full scope on relevant biological phenomena, modeling frameworks, technical challenges, and algorithms. Up-to-date developments of structures of biomolecules, systems biology, advanced models, and algorithms Sampling techniques for estimating evolutionary rates and generating molecular structures Accurate computation of probability landscape of stochastic networks, solving discrete chemical master equations End-of-chapter exercises

Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations

Author: Valentina Tozzini

Publisher: Frontiers Media SA

Published: 2020-10-27

Total Pages: 235

ISBN-13: 2889661091

DOWNLOAD EBOOK

This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.

Book Synopsis Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations by : Valentina Tozzini

Download or read book Multiscale Modeling From Macromolecules to Cell: Opportunities and Challenges of Biomolecular Simulations written by Valentina Tozzini and published by Frontiers Media SA. This book was released on 2020-10-27 with total page 235 pages. Available in PDF, EPUB and Kindle. Book excerpt: This eBook is a collection of articles from a Frontiers Research Topic. Frontiers Research Topics are very popular trademarks of the Frontiers Journals Series: they are collections of at least ten articles, all centered on a particular subject. With their unique mix of varied contributions from Original Research to Review Articles, Frontiers Research Topics unify the most influential researchers, the latest key findings and historical advances in a hot research area! Find out more on how to host your own Frontiers Research Topic or contribute to one as an author by contacting the Frontiers Editorial Office: frontiersin.org/about/contact.

Design and Analysis of Biomolecular Circuits

Author: Heinz Koeppl

Publisher: Springer Science & Business Media

Published: 2011-05-21

Total Pages: 407

ISBN-13: 1441967664

DOWNLOAD EBOOK

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.

Book Synopsis Design and Analysis of Biomolecular Circuits by : Heinz Koeppl

Download or read book Design and Analysis of Biomolecular Circuits written by Heinz Koeppl and published by Springer Science & Business Media. This book was released on 2011-05-21 with total page 407 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.

Hybrid Biomolecular Modeling

Author: Slavica Jonic

Publisher: Frontiers Media SA

Published: 2019-01-24

Total Pages: 128

ISBN-13: 2889456994

DOWNLOAD EBOOK

Models of biomolecular structure and dynamics are often obtained by combining simulation or prediction approaches (e.g., comparative modeling, Molecular Dynamics (MD) simulations, Normal Mode Analysis (NMA), etc.) with experimental approaches (e.g., Nuclear Magnetic Resonance (NMR), X-ray crystallography, Small-Angle X-ray Scattering (SAXS), Electron Microscopy (EM), etc.). Such hybrid modeling extends the capabilities of experimental techniques, by enriching structural information and facilitating dynamics studies of biomolecules. This eBook contains articles on methodological developments, applications, and challenges of hybrid biomolecular modeling that have been collected in the framework of the Frontiers Research Topic entitled “Hybrid Biomolecular Modeling”.

Book Synopsis Hybrid Biomolecular Modeling by : Slavica Jonic

Download or read book Hybrid Biomolecular Modeling written by Slavica Jonic and published by Frontiers Media SA. This book was released on 2019-01-24 with total page 128 pages. Available in PDF, EPUB and Kindle. Book excerpt: Models of biomolecular structure and dynamics are often obtained by combining simulation or prediction approaches (e.g., comparative modeling, Molecular Dynamics (MD) simulations, Normal Mode Analysis (NMA), etc.) with experimental approaches (e.g., Nuclear Magnetic Resonance (NMR), X-ray crystallography, Small-Angle X-ray Scattering (SAXS), Electron Microscopy (EM), etc.). Such hybrid modeling extends the capabilities of experimental techniques, by enriching structural information and facilitating dynamics studies of biomolecules. This eBook contains articles on methodological developments, applications, and challenges of hybrid biomolecular modeling that have been collected in the framework of the Frontiers Research Topic entitled “Hybrid Biomolecular Modeling”.

Fuzzy Systems in Bioinformatics and Computational Biology

Author: Yaochu Jin

Publisher: Springer Science & Business Media

Published: 2009-04-15

Total Pages: 336

ISBN-13: 3540899677

DOWNLOAD EBOOK

Biological systems are inherently stochastic and uncertain. Thus, research in bioinformatics, biomedical engineering and computational biology has to deal with a large amount of uncertainties. Fuzzy logic has shown to be a powerful tool in capturing different uncertainties in engineering systems. In recent years, fuzzy logic based modeling and analysis approaches are also becoming popular in analyzing biological data and modeling biological systems. Numerous research and application results have been reported that demonstrated the effectiveness of fuzzy logic in solving a wide range of biological problems found in bioinformatics, biomedical engineering, and computational biology. Contributed by leading experts world-wide, this edited book contains 16 chapters presenting representative research results on the application of fuzzy systems to genome sequence assembly, gene expression analysis, promoter analysis, cis-regulation logic analysis and synthesis, reconstruction of genetic and cellular networks, as well as biomedical problems, such as medical image processing, electrocardiogram data classification and anesthesia monitoring and control. This volume is a valuable reference for researchers, practitioners, as well as graduate students working in the field of bioinformatics, biomedical engineering and computational biology.

Book Synopsis Fuzzy Systems in Bioinformatics and Computational Biology by : Yaochu Jin

Download or read book Fuzzy Systems in Bioinformatics and Computational Biology written by Yaochu Jin and published by Springer Science & Business Media. This book was released on 2009-04-15 with total page 336 pages. Available in PDF, EPUB and Kindle. Book excerpt: Biological systems are inherently stochastic and uncertain. Thus, research in bioinformatics, biomedical engineering and computational biology has to deal with a large amount of uncertainties. Fuzzy logic has shown to be a powerful tool in capturing different uncertainties in engineering systems. In recent years, fuzzy logic based modeling and analysis approaches are also becoming popular in analyzing biological data and modeling biological systems. Numerous research and application results have been reported that demonstrated the effectiveness of fuzzy logic in solving a wide range of biological problems found in bioinformatics, biomedical engineering, and computational biology. Contributed by leading experts world-wide, this edited book contains 16 chapters presenting representative research results on the application of fuzzy systems to genome sequence assembly, gene expression analysis, promoter analysis, cis-regulation logic analysis and synthesis, reconstruction of genetic and cellular networks, as well as biomedical problems, such as medical image processing, electrocardiogram data classification and anesthesia monitoring and control. This volume is a valuable reference for researchers, practitioners, as well as graduate students working in the field of bioinformatics, biomedical engineering and computational biology.

Cellular Automata

Author: Alejandro Salcido

Publisher: BoD – Books on Demand

Published: 2011-04-11

Total Pages: 584

ISBN-13: 953307230X

DOWNLOAD EBOOK

Cellular automata make up a class of completely discrete dynamical systems, which have became a core subject in the sciences of complexity due to their conceptual simplicity, easiness of implementation for computer simulation, and their ability to exhibit a wide variety of amazingly complex behavior. The feature of simplicity behind complexity of cellular automata has attracted the researchers' attention from a wide range of divergent fields of study of science, which extend from the exact disciplines of mathematical physics up to the social ones, and beyond. Numerous complex systems containing many discrete elements with local interactions have been and are being conveniently modelled as cellular automata. In this book, the versatility of cellular automata as models for a wide diversity of complex systems is underlined through the study of a number of outstanding problems using these innovative techniques for modelling and simulation.

Book Synopsis Cellular Automata by : Alejandro Salcido

Download or read book Cellular Automata written by Alejandro Salcido and published by BoD – Books on Demand. This book was released on 2011-04-11 with total page 584 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cellular automata make up a class of completely discrete dynamical systems, which have became a core subject in the sciences of complexity due to their conceptual simplicity, easiness of implementation for computer simulation, and their ability to exhibit a wide variety of amazingly complex behavior. The feature of simplicity behind complexity of cellular automata has attracted the researchers' attention from a wide range of divergent fields of study of science, which extend from the exact disciplines of mathematical physics up to the social ones, and beyond. Numerous complex systems containing many discrete elements with local interactions have been and are being conveniently modelled as cellular automata. In this book, the versatility of cellular automata as models for a wide diversity of complex systems is underlined through the study of a number of outstanding problems using these innovative techniques for modelling and simulation.

Logical Modeling of Cellular Processes: From Software Development to Network Dynamics

Author: Matteo Barberis

Publisher: Frontiers Media SA

Published: 2019-08-16

Total Pages: 340

ISBN-13: 2889459837

DOWNLOAD EBOOK

Mathematical models have become invaluable tools for understanding the intricate dynamic behavior of complex biochemical and biological systems. Among computational strategies, logical modeling has been recently gaining interest as an alternative approach to address network dynamics. Due to its advantages, including scalability and independence of kinetic parameters, the logical modeling framework is becoming increasingly popular to study the dynamics of highly interconnected systems, such as cell cycle progression, T cell differentiation and gene regulation. Novel tools and standards have been developed to increase the interoperability of logical models, which can now be employ to respond a variety of biological questions. This Research Topic brings together the most recent and cutting-edge approaches in the area of logical modeling including, among others, novel biological applications, software development and model analysis techniques.

Book Synopsis Logical Modeling of Cellular Processes: From Software Development to Network Dynamics by : Matteo Barberis

Download or read book Logical Modeling of Cellular Processes: From Software Development to Network Dynamics written by Matteo Barberis and published by Frontiers Media SA. This book was released on 2019-08-16 with total page 340 pages. Available in PDF, EPUB and Kindle. Book excerpt: Mathematical models have become invaluable tools for understanding the intricate dynamic behavior of complex biochemical and biological systems. Among computational strategies, logical modeling has been recently gaining interest as an alternative approach to address network dynamics. Due to its advantages, including scalability and independence of kinetic parameters, the logical modeling framework is becoming increasingly popular to study the dynamics of highly interconnected systems, such as cell cycle progression, T cell differentiation and gene regulation. Novel tools and standards have been developed to increase the interoperability of logical models, which can now be employ to respond a variety of biological questions. This Research Topic brings together the most recent and cutting-edge approaches in the area of logical modeling including, among others, novel biological applications, software development and model analysis techniques.