Thermodynamic Network Analysis of Biological Systems
Thermodynamic Network Analysis of Biological Systems

Author: J. Schnakenberg

Publisher: Springer Science & Business Media

Published: 2012-12-06

Total Pages: 157

ISBN-13: 3642679714

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The first edition of this book was greeted with broad interest from readers en gaged in various disciplines of biophysics. I received many stimulating and en couraging responses, however, some of the book's reviewers wanted to stress the fact that an extensive literature of network theory was not included or reported in the book. But the main aspect of the book is intended to be substantive rather than methodical: networks simply serve as a remedy for doing some first steps in analysing and modelling complex biological systems. For an advanced stage in the investigation of a particular system it may be appropriate to replace the pheno menological network method by more detailed techniques like statistical equations or computer simulations. According to this intention, the second edition of the book has been enlarged by further biological examples for network analysis, not by more network theory. There is a completely new section on a network model for photoreception. For this section I am obliged to J. Tiedge who did most of the detailed calculation and to my colleague Professor Stieve with whom we have had a very fruitful cooperation. Also I would like to mention that this work has been sponsored by the "Deutsche Forschungsgemei nschaft" i n the "Sonderforschungsberei ch 160". Recent results for excitable systems represented by feedback networks have also been included in the second edition, especially for limit cycle networks.

Thermodynamic Network Analysis of Biological Systems
Thermodynamic Network Analysis of Biological Systems

Author: J. Schnakenberg

Publisher: Springer Science & Business Media

Published: 2012-12-06

Total Pages: 153

ISBN-13: 3642963943

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This book is devoted to the question: What fundamental ideas and concepts can phys ics contribute to the analysis of complex systems like those in biology and ecolo gy? The book originated from two lectures which I gave during the winter term 1974/75 and the summer term 1976 at the Rheinisch-Westfalische Technische Hoch schule in Aachen. The wish for a lecture with this kind of subject was brought forward by students of physics as well as by those from other disciplines like biology, physiology, and engineering sciences. The students of physics were look ing for ways which might lead them from their monodisciplinary studies into the interdisciplinary field between physics and life sciences. The students from the other disciplines suspected that there might be helpful physical concepts and ideas for the analysis of complex systems they ought to become acquainted with. It is clear that a lecture or a book which tries to realize the expectations of both these groups will meet with difficulties arising from the different train ings and background knowledge of physicists and nonphysicists. For the physicists, I have tried to give a brief description of the biological aspect and significance of a problem wherever it seems necessary and appropriate and as far as a physicist like me feels authorized to do so.

Biological Network Analysis
Biological Network Analysis

Author: Pietro Hiram Guzzi

Publisher: Elsevier

Published: 2020-05-11

Total Pages: 212

ISBN-13: 0128193514

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Biological Network Analysis: Trends, Approaches, Graph Theory, and Algorithms considers three major biological networks, including Gene Regulatory Networks (GRN), Protein-Protein Interaction Networks (PPIN), and Human Brain Connectomes. The book's authors discuss various graph theoretic and data analytics approaches used to analyze these networks with respect to available tools, technologies, standards, algorithms and databases for generating, representing and analyzing graphical data. As a wide variety of algorithms have been developed to analyze and compare networks, this book is a timely resource. - Presents recent advances in biological network analysis, combining Graph Theory, Graph Analysis, and various network models - Discusses three major biological networks, including Gene Regulatory Networks (GRN), Protein-Protein Interaction Networks (PPIN) and Human Brain Connectomes - Includes a discussion of various graph theoretic and data analytics approaches

Physics of Bioenergetic Processes
Physics of Bioenergetic Processes

Author: L. A. Blumenfeld

Publisher: Springer Science & Business Media

Published: 2012-12-06

Total Pages: 141

ISBN-13: 3642685250

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According to its definition, synergetics is concerned with the cooperation of indi vidual parts of a system that produces macroscopic temporal, spatial or functional structures. A good deal of the volumes published within this series dealt with the formation of truly macroscopic structures which we can s. ee with our eyes. A common scheme could be developed to understand the formation of many patterns through self-organization. In particular, we have to use concepts which go beyond conventio nal thermodynamics. New ideas became crucial. We have to study kinetic processes, and often few highly excited degrees of freedom play the decisive role in the evo lution of structures. Over the past years it has turned out that quite similar lines of approach apply to a world which at first sight would be classified as "microsco pic". That world consists of processes in which biomolecules are involved. An impor tant example for the problems occurring there is provided by Manfred Eigen's theory of evolution of life at the molecular level (cf. his contribution to Volume 17 of this series). Another important example has been provided by Blumenfeld's book on problems of biological physics (Vol. 7 of this series). There it was proposed to treat biological molecules as machines which, in a certain sense, work through "macros copic" degrees of freedom.

Molecular Collision Dynamics
Molecular Collision Dynamics

Author: J.M. Bowman

Publisher: Springer Science & Business Media

Published: 2012-12-06

Total Pages: 167

ISBN-13: 3642819435

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This monograph covers a broad spectrum of topics in the very broad field of gas phase molecular collision dynamics. The Introduction previews each of the four fol lowing topics and attempts to sew them together with a common thread. In addition, a brief review of quantum reactive scattering is given there along with some gen eral remarks which highlight the difficulties in doing quantum reactive scatter ing calculations. The chapters are all written by theoreticians who are, of course, experts in the subjects they have written about. Three chapters, the ones by Secrest, Schatz, and the one by Schinke and Bowman deal with non-reactive atom-molecule scattering. Col lectively, they describe nearly the full breadth of scattering methods in use to day, from fully quantum mechanical to semiclassical and quasiclassical. The chapter by Baer is the only one dealing with quantum reactive scattering with the additional complexity of the coupling of two potential energy surfaces. The one simplifying feature of the treatment is that the reaction is constrained to be collinear. Overall, this monograph is mainly a review of the recent advances in the field of molecular collision dynamics, with, however, a considerable amount of new material. It is hoped that workers and students in the field will find reading the mono graph both enlightening and enjoyable.

Synergetics
Synergetics

Author: Hermann Haken

Publisher: Springer Science & Business Media

Published: 2012-12-06

Total Pages: 279

ISBN-13: 3642667848

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This volume contains most of the invited papers presented at the International Work shop on Synergetics, Schloss E1mau, Bavaria, May 2 to.May 7, 1977. This workshop fol lowed an International Symposium on SynergetiGS at Schloss E1mau, 1972, and an Inter national SUl11l1erschoo1 at Erice, Sicily, 1974. Synergetics is a rather new field of interdisciplinary research which studies the self-organized behavior of systems leading to the formation of structures and func tionings. Indeed the whole universe seems to be organized, with pronounced structures starting from spiral galaxies down to living cells. Furthermore, very many of the most interesting phenomena occur in systems which are far from thermal equilibrium. Synergetics in its present form focusses its attention on those phenomena where dra matic changes occur on a macroscopic scale. Here indeed Synergetics was able to re veal profound analogies between systems in different disciplines ranging from physics to sociology. This volume contains contributions from various fields but the reader will easily discover their cOl11J1on goal. Not only in the natural sciences but also in ecology, sociology, and economy, man is confronted with the problems of complex sys tems. The principles and analogies unearthed by Synergetics will certainly be very he1pfu~ to cope with such difficult problems. I use this opportunity to thank the Vo1kswagenwerk Foundation for its support of the project Synergetics and in particular for sponsoring the International Workshop on Synergetics.

Mathematical Technology of Networks
Mathematical Technology of Networks

Author: Delio Mugnolo

Publisher: Springer

Published: 2015-07-06

Total Pages: 210

ISBN-13: 3319166190

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Dynamical models on graphs or random graphs are increasingly used in applied sciences as mathematical tools to study complex systems whose exact structure is too complicated to be known in detail. Besides its importance in applied sciences, the field is increasingly attracting the interest of mathematicians and theoretical physicists also because of the fundamental phenomena (synchronization, phase transitions etc.) that can be studied in the relatively simple framework of dynamical models of random graphs. This volume was developed from the Mathematical Technology of Networks conference held in Bielefeld, Germany in December 2013. The conference was designed to bring together functional analysts, mathematical physicists, and experts in dynamical systems. The contributors to this volume explore the interplay between theoretical and applied aspects of discrete and continuous graphs. Their work helps to close the gap between different avenues of research on graphs, including metric graphs and ramified structures.