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Author : S K Sarkar
Publisher : Myprint
Page : 76 pages
File Size : 44,8 Mb
Release : 2016-04-20
Category : Electronic
ISBN : 1681748436
Author : Susanta K. Sarkar
Publisher : Unknown
Page : 128 pages
File Size : 46,8 Mb
Release : 2016
Category : SCIENCE
ISBN : 1681742446
This is an overview of single molecule physics, the study of both equilibrium and non-equilibrium properties at the single molecule level. It begins with an introduction to this fascinating science and includes a chapter on how to build the most popular instrument for single molecule biophysics, the total internal reflection fluorescence (TIRF) microscope. It concludes with the Poisson process approach to statistical mechanics, explaining how to relate the process to diverse areas and see how data analysis and error bars are integral parts of science.
Author : Susanta K Sarkar
Publisher : Morgan & Claypool Publishers
Page : 74 pages
File Size : 54,6 Mb
Release : 2016-04-01
Category : Science
ISBN : 9781681741161
This is an overview of single molecule physics, the study of both equilibrium and non-equilibrium properties at the single molecule level. It begins with an introduction to this fascinating science and includes a chapter on how to build the most popular instrument for single molecule biophysics, the total internal reflection fluorescence (TIRF) microscope. It concludes with the Poisson process approach to statistical mechanics, explaining how to relate the process to diverse areas and see how data analysis and error bars are integral parts of science.
Author : Yury A. Kutoyants
Publisher : Springer Nature
Page : 683 pages
File Size : 52,6 Mb
Release : 2023-09-04
Category : Mathematics
ISBN : 9783031370540
This book covers an extensive class of models involving inhomogeneous Poisson processes and deals with their identification, i.e. the solution of certain estimation or hypothesis testing problems based on the given dataset. These processes are mathematically easy-to-handle and appear in numerous disciplines, including astronomy, biology, ecology, geology, seismology, medicine, physics, statistical mechanics, economics, image processing, forestry, telecommunications, insurance and finance, reliability, queuing theory, wireless networks, and localisation of sources. Beginning with the definitions and properties of some fundamental notions (stochastic integral, likelihood ratio, limit theorems, etc.), the book goes on to analyse a wide class of estimators for regular and singular statistical models. Special attention is paid to problems of change-point type, and in particular cusp-type change-point models, then the focus turns to the asymptotically efficient nonparametric estimation of the mean function, the intensity function, and of some functionals. Traditional hypothesis testing, including some goodness-of-fit tests, is also discussed. The theory is then applied to three classes of problems: misspecification in regularity (MiR),corresponding to situations where the chosen change-point model and that of the real data have different regularity; optical communication with phase and frequency modulation of periodic intensity functions; and localization of a radioactive (Poisson) source on the plane using K detectors. Each chapter concludes with a series of problems, and state-of-the-art references are provided, making the book invaluable to researchers and students working in areas which actively use inhomogeneous Poisson processes.
Author : Daniel M. Zuckerman
Publisher : CRC Press
Page : 356 pages
File Size : 48,7 Mb
Release : 2010-06-02
Category : Mathematics
ISBN : 9781420073799
From the hydrophobic effect to protein-ligand binding, statistical physics is relevant in almost all areas of molecular biophysics and biochemistry, making it essential for modern students of molecular behavior. But traditional presentations of this material are often difficult to penetrate. Statistical Physics of Biomolecules: An Introduction brin
Author : Prof. Jan Hermans,Prof. Barry Lentz
Publisher : John Wiley & Sons
Page : 524 pages
File Size : 47,7 Mb
Release : 2013-10-22
Category : Science
ISBN : 9781118733776
Progressively builds a deep understanding of macromolecular behavior Based on each of the authors' roughly forty years of biophysics research and teaching experience, this text instills readers with a deep understanding of the biophysics of macromolecules. It sets a solid foundation in the basics by beginning with core physical concepts such as thermodynamics, quantum chemical models, molecular structure and interactions, and water and the hydrophobic effect. Next, the book examines statistical mechanics, protein-ligand binding, and conformational stability. Finally, the authors address kinetics and equilibria, exploring underlying theory, protein folding, and stochastic models. With its strong emphasis on molecular interactions, Equilibria and Kinetics of Biological Macromolecules offers new insights and perspectives on proteins and other macromolecules. The text features coverage of: Basic theory, applications, and new research findings Related topics in thermodynamics, quantum mechanics, statistical mechanics, and molecular simulations Principles and applications of molecular simulations in a dedicated chapter and interspersed throughout the text Macromolecular binding equilibria from the perspective of statistical mechanics Stochastic processes related to macromolecules Suggested readings at the end of each chapter include original research papers, reviews and monographs, enabling readers to explore individual topics in greater depth. At the end of the text, ten appendices offer refreshers on mathematical treatments, including probability, computational methods, Poisson equations, and defining molecular boundaries. With its classroom-tested pedagogical approach, Equilibria and Kinetics of Biological Macromolecules is recommended as a graduate-level textbook for biophysics courses and as a reference for researchers who want to strengthen their understanding of macromolecular behavior.
Author : Hagai Meirovitch
Publisher : CRC Press
Page : 374 pages
File Size : 43,5 Mb
Release : 2020-08-14
Category : Computers
ISBN : 9781000072303
Computer simulation has become the main engine of development in statistical mechanics. In structural biology, computer simulation constitutes the main theoretical tool for structure determination of proteins and for calculation of the free energy of binding, which are important in drug design. Entropy and Free Energy in Structural Biology leads the reader to the simulation technology in a systematic way. The book, which is structured as a course, consists of four parts: Part I is a short course on probability theory emphasizing (1) the distinction between the notions of experimental probability, probability space, and the experimental probability on a computer, and (2) elaborating on the mathematical structure of product spaces. These concepts are essential for solving probability problems and devising simulation methods, in particular for calculating the entropy. Part II starts with a short review of classical thermodynamics from which a non-traditional derivation of statistical mechanics is devised. Theoretical aspects of statistical mechanics are reviewed extensively. Part III covers several topics in non-equilibrium thermodynamics and statistical mechanics close to equilibrium, such as Onsager relations, the two Fick's laws, and the Langevin and master equations. The Monte Carlo and molecular dynamics procedures are discussed as well. Part IV presents advanced simulation methods for polymers and protein systems, including techniques for conformational search and for calculating the potential of mean force and the chemical potential. Thermodynamic integration, methods for calculating the absolute entropy, and methodologies for calculating the absolute free energy of binding are evaluated. Enhanced by a number of solved problems and examples, this volume will be a valuable resource to advanced undergraduate and graduate students in chemistry, chemical engineering, biochemistry biophysics, pharmacology, and computational biology.
Author : Bernard H. Lavenda
Publisher : Wiley-Interscience
Page : 392 pages
File Size : 52,5 Mb
Release : 1991-11-15
Category : Science
ISBN : UOM:39015022007143
There is a single, central theme to this book: the connection between entropy and probability is through a law of error for extensive thermodynamic variables and Boltzmann’s principle is a consequence of it. This is the missing link that removes the ambiguity from Boltzmann’s principle and serves as an extremely powerful tool in the analysis of physical phenomena which can be subjected to a statistical analysis. Moreover, it will allow statistical thermodynamics to be viewed from the perspective of the theory of mathematical statistics.
Author : Susanta K Sarkar
Publisher : Morgan & Claypool Publishers
Page : 76 pages
File Size : 55,7 Mb
Release : 2016-04-01
Category : Science
ISBN : 9781681741802
This is an overview of single molecule physics, the study of both equilibrium and non-equilibrium properties at the single molecule level. It begins with an introduction to this fascinating science and includes a chapter on how to build the most popular instrument for single molecule biophysics, the total internal reflection fluorescence (TIRF) microscope. It concludes with the Poisson process approach to statistical mechanics, explaining how to relate the process to diverse areas and see how data analysis and error bars are integral parts of science.
Author : C.V. Heer
Publisher : Elsevier
Page : 618 pages
File Size : 41,5 Mb
Release : 2012-12-02
Category : Science
ISBN : 9780323144414
Statistical Mechanics, Kinetic Theory, and Stochastic Processes presents the statistical aspects of physics as a "living and dynamic" subject. In order to provide an elementary introduction to kinetic theory, physical systems in which particle-particle interaction can be neglected are considered. Transport phenomena in the free-molecular flow region for gases and the transport of thermal radiation are discussed. Discrete random processes such as random walk, binomial and Poisson distributions, and throwing of dice are studied by means of the characteristic function. Comprised of 11 chapters, this book begins with an introduction to the mass point gas as well as some elementary properties of space and velocity distributions. The discussion then turns to radiation and its interaction with an atom; probability, statistics, and conditional probability; intermolecular interactions; transport phenomena; and statistical thermodynamics. Molecular systems at low densities are also considered, together with non-ideal and real gases; liquids and solids; and stochastic processes, noise, and fluctuations. In particular, the response of atoms and molecules to perturbations and scattering by crystals, liquids, and high-pressure gases are examined. This monograph will be useful for undergraduate students, practitioners, and researchers in physics.
Author : Kerson Huang
Publisher : World Scientific Publishing Company Incorporated
Page : 144 pages
File Size : 50,6 Mb
Release : 2005-01-01
Category : Science
ISBN : 9812561501
This book introduces an approach to protein folding from the point of view of kinetic theory. There is an abundance of data on protein folding, but few proposals are available on the mechanism driving the process. Here, presented for the first time, are suggestion on possible research directions, as developed by the author in collaboration with C. C. Lin. The first half of this invaluable book contains a concise but relatively complete review of relevant topics in statistical mechanics and kinetic theory. It includes standard topics such as thermodynamics, the Maxwell-Boltzmann distribution, and ensemble theory. Special discussions include the dynamics of phase transitions, and Brownian motion as an illustration of stochastic processes. The second half develops topics in molecular biology and protein structure, with a view to discovering mechanisms underlying protein folding. Attention is focused on the energy flow through the protein in its folded state. A mathematical model, based on the Brownian motion of coupled harmonic oscillators, is worked out in the appendix.
Author : Oren M. Becker,Alexander D. MacKerell Jr.,Benoit Roux,Masakatsu Watanabe
Publisher : CRC Press
Page : 525 pages
File Size : 47,9 Mb
Release : 2001-02-09
Category : Science
ISBN : 9780824741402
Covering theoretical methods and computational techniques in biomolecular research, this book focuses on approaches for the treatment of macromolecules, including proteins, nucleic acids, and bilayer membranes. It uses concepts in free energy calculations, conformational analysis, reaction rates, and transition pathways to calculate and interpret biomolecular properties gleaned from computer-generated membrane simulations. It also demonstrates comparative protein structure modeling, outlines computer-aided drug design, discusses Bayesian statistics in molecular and structural biology, and examines the RISM-SCF/MCSCF approach to chemical processes in solution.
Author : Carmen Domene
Publisher : Royal Society of Chemistry
Page : 274 pages
File Size : 47,9 Mb
Release : 2016-12-05
Category : Science
ISBN : 9781782624905
Exploring current themes in modern computational and membrane protein biophysics, this book is ideal for researchers in computational chemistry and computational biophysics.
Author : Meyer B. Jackson
Publisher : Cambridge University Press
Page : 128 pages
File Size : 42,8 Mb
Release : 2006-01-12
Category : Science
ISBN : 1139447246
Molecular and Cellular Biophysics provides advanced undergraduate and graduate students with a foundation in the basic concepts of biophysics. Students who have taken physical chemistry and calculus courses will find this book an accessible and valuable aid in learning how these concepts can be used in biological research. The text provides a rigorous treatment of the fundamental theories in biophysics and illustrates their application with examples. Conformational transitions of proteins are studied first using thermodynamics, and subsequently with kinetics. Allosteric theory is developed as the synthesis of conformational transitions and association reactions. Basic ideas of thermodynamics and kinetics are applied to topics such as protein folding, enzyme catalysis and ion channel permeation. These concepts are then used as the building blocks in a treatment of membrane excitability. Through these examples, students will gain an understanding of the general importance and broad applicability of biophysical principles to biological problems.
Author : National Academy of Sciences (U.S.)
Publisher : Unknown
Page : 1308 pages
File Size : 52,5 Mb
Release : 2007
Category : Science
ISBN : WISC:89100587443