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Chemical Reaction Networks
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Book Synopsis Foundations of Chemical Reaction Network Theory by : Martin Feinberg
Download or read book Foundations of Chemical Reaction Network Theory written by Martin Feinberg and published by Springer. This book was released on 2019-01-31 with total page 475 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an authoritative introduction to the rapidly growing field of chemical reaction network theory. In particular, the book presents deep and surprising theorems that relate the graphical and algebraic structure of a reaction network to qualitative properties of the intricate system of nonlinear differential equations that the network induces. Over the course of three main parts, Feinberg provides a gradual transition from a tutorial on the basics of reaction network theory, to a survey of some of its principal theorems, and, finally, to a discussion of the theory’s more technical aspects. Written with great clarity, this book will be of value to mathematicians and to mathematically-inclined biologists, chemists, physicists, and engineers who want to contribute to chemical reaction network theory or make use of its powerful results.
Book Synopsis Chemical Reaction Networks by : Oleg N. Temkin
Download or read book Chemical Reaction Networks written by Oleg N. Temkin and published by CRC Press. This book was released on 2020-07-24 with total page 300 pages. Available in PDF, EPUB and Kindle. Book excerpt: Over the last decade, increased attention to reaction dynamics, combined with the intensive application of computers in chemical studies, mathematical modeling of chemical processes, and mechanistic studies has brought graph theory to the forefront of research. It offers an advanced and powerful formalism for the description of chemical reactions and their intrinsic reaction mechanisms. Chemical Reaction Networks: A Graph-Theoretical Approach elegantly reviews and expands upon graph theory as applied to mechanistic theory, chemical kinetics, and catalysis. The authors explore various graph-theoretical approaches to canonical representation, numbering, and coding of elementary steps and chemical reaction mechanisms, the analysis of their topological structure, the complexity estimation, and classification of reaction mechanisms. They discuss topologically distinctive features of multiroute catalytic and noncatalytic and chain reactions involving metal complexes. With it's careful balance of clear language and mathematical rigor, the presentation of the authors' significant original work, and emphasis on practical applications and examples, Chemical Reaction Networks: A Graph Theoretical Approach is both an outstanding reference and valuable tool for chemical research.
Book Synopsis Out-of-Equilibrium (Supra)molecular Systems and Materials by : Nicolas Giuseppone
Download or read book Out-of-Equilibrium (Supra)molecular Systems and Materials written by Nicolas Giuseppone and published by John Wiley & Sons. This book was released on 2021-03-30 with total page 448 pages. Available in PDF, EPUB and Kindle. Book excerpt: A must-have resource that covers everything from out-of-equilibrium chemical systems and materials to dissipative self-assemblies Out-of-Equilibrium Supramolecular Systems and Materials presents a comprehensive overview of the synthetic approaches that use supramolecular bonds in various out-of-thermodynamic equilibrium situations. With contributions from noted experts on the topic, the text contains information on the design of dissipative self-assemblies that maintain their structures when fueled by an external source of energy. The contributors also examine molecules and nanoscale objects and materials that can produce mechanical work based on molecular machines. Additionally, the book explores non-equilibrium supramolecular polymers that can be trapped in kinetically stable states, as well as out-of-equilibrium chemical systems and oscillators that are important to understand the emergence of complex behaviors and, in particular, the origin of life. This important book: Offers comprehensive coverage of fields from design of dissipative self-assemblies to non-equilibrium supramolecular polymers Presents information on a highly emerging and interdisciplinary topic Includes contributions from internationally renowned scientists Written for chemists, physical chemists, biochemists, material scientists, Out-of-Equilibrium Supramolecular Systems and Materials is an indispensable resource written by top scientists in the field.
Book Synopsis Mathematical Models of Chemical Reactions by : Péter Érdi
Download or read book Mathematical Models of Chemical Reactions written by Péter Érdi and published by Manchester University Press. This book was released on 1989 with total page 296 pages. Available in PDF, EPUB and Kindle. Book excerpt:
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.
Book Synopsis Algorithmic Bioprocesses by : Anne Condon
Download or read book Algorithmic Bioprocesses written by Anne Condon and published by Springer. This book was released on 2009-09-02 with total page 742 pages. Available in PDF, EPUB and Kindle. Book excerpt: A fundamental understanding of algorithmic bioprocesses is key to learning how information processing occurs in nature at the cell level. The field is concerned with the interactions between computer science on the one hand and biology, chemistry, and DNA-oriented nanoscience on the other. In particular, this book offers a comprehensive overview of research into algorithmic self-assembly, RNA folding, the algorithmic foundations for biochemical reactions, and the algorithmic nature of developmental processes. The editors of the book invited 36 chapters, written by the leading researchers in this area, and their contributions include detailed tutorials on the main topics, surveys of the state of the art in research, experimental results, and discussions of specific research goals. The main subjects addressed are sequence discovery, generation, and analysis; nanoconstructions and self-assembly; membrane computing; formal models and analysis; process calculi and automata; biochemical reactions; and other topics from natural computing, including molecular evolution, regulation of gene expression, light-based computing, cellular automata, realistic modelling of biological systems, and evolutionary computing. This subject is inherently interdisciplinary, and this book will be of value to researchers in computer science and biology who study the impact of the exciting mutual interaction between our understanding of bioprocesses and our understanding of computation.
Book Synopsis Stochastic Analysis of Biochemical Systems by : David F. Anderson
Download or read book Stochastic Analysis of Biochemical Systems written by David F. Anderson and published by Springer. This book was released on 2015-04-23 with total page 84 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on counting processes and continuous-time Markov chains motivated by examples and applications drawn from chemical networks in systems biology. The book should serve well as a supplement for courses in probability and stochastic processes. While the material is presented in a manner most suitable for students who have studied stochastic processes up to and including martingales in continuous time, much of the necessary background material is summarized in the Appendix. Students and Researchers with a solid understanding of calculus, differential equations and elementary probability and who are well-motivated by the applications will find this book of interest. David F. Anderson is Associate Professor in the Department of Mathematics at the University of Wisconsin and Thomas G. Kurtz is Emeritus Professor in the Departments of Mathematics and Statistics at that university. Their research is focused on probability and stochastic processes with applications in biology and other areas of science and technology. These notes are based in part on lectures given by Professor Anderson at the University of Wisconsin – Madison and by Professor Kurtz at Goethe University Frankfurt.
Book Synopsis Quantum Techniques In Stochastic Mechanics by : Baez John C
Download or read book Quantum Techniques In Stochastic Mechanics written by Baez John C and published by World Scientific. This book was released on 2018-02-14 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: We introduce the theory of chemical reaction networks and their relation to stochastic Petri nets — important ways of modeling population biology and many other fields. We explain how techniques from quantum mechanics can be used to study these models. This relies on a profound and still mysterious analogy between quantum theory and probability theory, which we explore in detail. We also give a tour of key results concerning chemical reaction networks and Petri nets. Contents: Stochastic Petri Nets The Rate Equation The Master Equation Probabilities vs Amplitudes Annihilation and Creation Operators An Example from Population Biology Feynman Diagrams The Anderson–Craciun–Kurtz Theorem An Example of the Anderson–Craciun–Kurtz Theorem A Stochastic Version of Noether's Theorem Quantum Mechanics vs Stochastic Mechanics Noether's Theorem: Quantum vs Stochastic Chemistry and the Desargues Graph Graph Laplacians Dirichlet Operators and Electrical Circuits Perron–Frobenius Theory The Deficiency Zero Theorem Example of the Deficiency Zero Theorem Example of the Anderson–Craciun–Kurtz Theorem The Deficiency of a Reaction Network Rewriting the Rate Equation The Rate Equation and Markov Processes Proof of the Deficiency Zero Theorem Noether's Theorem for Dirichlet Operators Computation and Petri Nets Summary Table Readership: Graduate students and researchers in the field of quantum and mathematical physics. Keywords: Stochastic;Quantum;Markov Process;Chemical Reaction Network;Petri NetReview: Key Features: It's a light-hearted introduction to a deep analogy between probability theory and quantum theory It explains how stochastic Petri nets can be used in modeling in biology, chemistry, and many other fields It gives new proofs of some fundamental theorems about chemical reaction networks
Book Synopsis DNA Computing and Molecular Programming by : Chris Thachuk
Download or read book DNA Computing and Molecular Programming written by Chris Thachuk and published by Springer. This book was released on 2019-07-30 with total page 237 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 25th International Conference on DNA Computing and Molecular Programming, DNA 25, held in Seattle, WA, USA, in August 2019. The 12 full papers presented were carefully selected from 19 submissions. The papers cover a wide range of topics relating to biomolecular computing such as algorithms and models for computation on biomolecular systems; computational processes in vitro and in vivo; molecular switches, gates, devices, and circuits; molecular folding and self-assembly of nanostructures; analysis and theoretical models of laboratory techniques; molecular motors and molecular robotics; information storage; studies of fault-tolerance and error correction; software tools for analysis, simulation, anddesign; synthetic biology and in vitro evolution; and applications in engineering, physics, chemistry, biology, and medicine.
Book Synopsis Applications of Polynomial Systems by : David A. Cox
Download or read book Applications of Polynomial Systems written by David A. Cox and published by American Mathematical Soc.. This book was released on 2020-03-02 with total page 250 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems of polynomial equations can be used to model an astonishing variety of phenomena. This book explores the geometry and algebra of such systems and includes numerous applications. The book begins with elimination theory from Newton to the twenty-first century and then discusses the interaction between algebraic geometry and numerical computations, a subject now called numerical algebraic geometry. The final three chapters discuss applications to geometric modeling, rigidity theory, and chemical reaction networks in detail. Each chapter ends with a section written by a leading expert. Examples in the book include oil wells, HIV infection, phylogenetic models, four-bar mechanisms, border rank, font design, Stewart-Gough platforms, rigidity of edge graphs, Gaussian graphical models, geometric constraint systems, and enzymatic cascades. The reader will encounter geometric objects such as Bézier patches, Cayley-Menger varieties, and toric varieties; and algebraic objects such as resultants, Rees algebras, approximation complexes, matroids, and toric ideals. Two important subthemes that appear in multiple chapters are toric varieties and algebraic statistics. The book also discusses the history of elimination theory, including its near elimination in the middle of the twentieth century. The main goal is to inspire the reader to learn about the topics covered in the book. With this in mind, the book has an extensive bibliography containing over 350 books and papers.
Book Synopsis Theory of Chemical Reaction Dynamics by : Antonio Laganà
Download or read book Theory of Chemical Reaction Dynamics written by Antonio Laganà and published by Springer Science & Business Media. This book was released on 2006-03-28 with total page 498 pages. Available in PDF, EPUB and Kindle. Book excerpt: Proceedings of the NATO Advanced Research Workshop, held in Balatonföldvár, Hungary, 8-12 June 2003
Book Synopsis Artificial Chemistries by : Wolfgang Banzhaf
Download or read book Artificial Chemistries written by Wolfgang Banzhaf and published by MIT Press. This book was released on 2015-07-03 with total page 572 pages. Available in PDF, EPUB and Kindle. Book excerpt: An introduction to the fundamental concepts of the emerging field of Artificial Chemistries, covering both theory and practical applications. The field of Artificial Life (ALife) is now firmly established in the scientific world, but it has yet to achieve one of its original goals: an understanding of the emergence of life on Earth. The new field of Artificial Chemistries draws from chemistry, biology, computer science, mathematics, and other disciplines to work toward that goal. For if, as it has been argued, life emerged from primitive, prebiotic forms of self-organization, then studying models of chemical reaction systems could bring ALife closer to understanding the origins of life. In Artificial Chemistries (ACs), the emphasis is on creating new interactions rather than new materials. The results can be found both in the virtual world, in certain multiagent systems, and in the physical world, in new (artificial) reaction systems. This book offers an introduction to the fundamental concepts of ACs, covering both theory and practical applications. After a general overview of the field and its methodology, the book reviews important aspects of biology, including basic mechanisms of evolution; discusses examples of ACs drawn from the literature; considers fundamental questions of how order can emerge, emphasizing the concept of chemical organization (a closed and self-maintaining set of chemicals); and surveys a range of applications, which include computing, systems modeling in biology, and synthetic life. An appendix provides a Python toolkit for implementing ACs.
Book Synopsis Kinetics of Chemical Processes by : Michel Boudart
Download or read book Kinetics of Chemical Processes written by Michel Boudart and published by Elsevier. This book was released on 2014-05-16 with total page 263 pages. Available in PDF, EPUB and Kindle. Book excerpt: Kinetics of Chemical Processes details the concepts associated with the kinetic study of the chemical processes. The book is comprised of 10 chapters that present information relevant to applied research. The text first covers the elementary chemical kinetics of elementary steps, and then proceeds to discussing catalysis. The next chapter tackles simplified kinetics of sequences at the steady state. Chapter 5 deals with coupled sequences in reaction networks, while Chapter 6 talks about autocatalysis and inhibition. The seventh chapter describes the irreducible transport phenomena in chemical kinetics. The next two chapters discuss the correlations in homogenous kinetics and heterogeneous catalysis, respectively. The last chapter covers the analysis of reaction networks. The book will be of great use to students, researchers, and practitioners of scientific disciplines that deal with chemical reaction, particularly chemistry and chemical engineering.
Book Synopsis Beyond the Molecular Frontier by : National Research Council
Download or read book Beyond the Molecular Frontier written by National Research Council and published by National Academies Press. This book was released on 2003-03-19 with total page 238 pages. Available in PDF, EPUB and Kindle. Book excerpt: Chemistry and chemical engineering have changed significantly in the last decade. They have broadened their scopeâ€"into biology, nanotechnology, materials science, computation, and advanced methods of process systems engineering and controlâ€"so much that the programs in most chemistry and chemical engineering departments now barely resemble the classical notion of chemistry. Beyond the Molecular Frontier brings together research, discovery, and invention across the entire spectrum of the chemical sciencesâ€"from fundamental, molecular-level chemistry to large-scale chemical processing technology. This reflects the way the field has evolved, the synergy at universities between research and education in chemistry and chemical engineering, and the way chemists and chemical engineers work together in industry. The astonishing developments in science and engineering during the 20th century have made it possible to dream of new goals that might previously have been considered unthinkable. This book identifies the key opportunities and challenges for the chemical sciences, from basic research to societal needs and from terrorism defense to environmental protection, and it looks at the ways in which chemists and chemical engineers can work together to contribute to an improved future.
Book Synopsis Recent Advances in Differential Equations and Applications by : Juan Luis García Guirao
Download or read book Recent Advances in Differential Equations and Applications written by Juan Luis García Guirao and published by Springer. This book was released on 2019-01-04 with total page 244 pages. Available in PDF, EPUB and Kindle. Book excerpt: This work gathers a selection of outstanding papers presented at the 25th Conference on Differential Equations and Applications / 15th Conference on Applied Mathematics, held in Cartagena, Spain, in June 2017. It supports further research into both ordinary and partial differential equations, numerical analysis, dynamical systems, control and optimization, trending topics in numerical linear algebra, and the applications of mathematics to industry. The book includes 14 peer-reviewed contributions and mainly addresses researchers interested in the applications of mathematics, especially in science and engineering. It will also greatly benefit PhD students in applied mathematics, engineering and physics.
Book Synopsis Reaction Rate Constant Computations by : Keli Han
Download or read book Reaction Rate Constant Computations written by Keli Han and published by Royal Society of Chemistry. This book was released on 2014 with total page 592 pages. Available in PDF, EPUB and Kindle. Book excerpt: The reaction rate constant plays an essential role a wide range of processes in biology, chemistry and physics. Calculating the reaction rate constant provides considerable understanding to a reaction and this book presents the latest thinking in modern rate computational theory. The editors have more than 30 years' experience in researching the theoretical computation of chemical reaction rate constants by global dynamics and transition state theories and have brought together a global pool of expertise discussing these in a variety of contexts and across all phases. This thorough treatment of the subject provides an essential handbook to students and researchers entering the field and a comprehensive reference to established practitioners across the sciences, providing better tools to determining reaction rate constants.
Book Synopsis Engineering of Chemical Complexity by : Alexander S. Mikhailov
Download or read book Engineering of Chemical Complexity written by Alexander S. Mikhailov and published by World Scientific. This book was released on 2013 with total page 413 pages. Available in PDF, EPUB and Kindle. Book excerpt: This review volume, co-edited by Nobel laureate G Ertl, provides a broad overview on current studies in the understanding of design and control of complex chemical systems of various origins, on scales ranging from single molecules and nano-phenomena to macroscopic chemical reactors. Self-organizational behavior and the emergence of coherent collective dynamics in reaction diffusion systems, reactive soft matter and chemical networks are covered. Special attention is paid to the applications in molecular cell biology and to the problems of biological evolution, synthetic biology and design of artificial living cells. Starting with a detailed introduction on the history of research on complex chemical systems, its current state of the art and perspectives, the book comprises 19 chapters that survey the current progress in particular research fields. The reviews, prepared by leading international experts, yield together a fascinating picture of a rapidly developing research discipline that brings chemical engineering to new frontiers.
