A Mathematical Approach To Protein Biophysics
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A Mathematical Approach To Protein Biophysics
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Author : L. Ridgway Scott
language : en
Publisher: Springer
Release Date : 2017-12-04
A Mathematical Approach To Protein Biophysics written by L. Ridgway Scott and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-12-04 with Mathematics categories.
This book explores quantitative aspects of protein biophysics and attempts to delineate certain rules of molecular behavior that make atomic scale objects behave in a digital way. This book will help readers to understand how certain biological systems involving proteins function as digital information systems despite the fact that underlying processes are analog in nature. The in-depth explanation of proteins from a quantitative point of view and the variety of level of exercises (including physical experiments) at the end of each chapter will appeal to graduate and senior undergraduate students in mathematics, computer science, mechanical engineering, and physics, wanting to learn about the biophysics of proteins. L. Ridgway Scott has been Professor of Computer Science and of Mathematics at the University of Chicago since 1998, and the Louis Block Professor since 2001. He obtained a B.S. degree (Magna Cum Laude) from Tulane University in 1969 and a PhD degree in Mathematics from the Massachusetts Institute of Technology in 1973. Professor Scott has published over 130 papers and three books, extending over biophysics, parallel computing and fundamental computing aspects of structural mechanics, fluid dynamics, nuclear engineering, and computational chemistry. Ariel Fernández (born Ariel Fernández Stigliano) is an Argentinian-American physical chemist and mathematician. He obtained his Ph. D. degree in Chemical Physics from Yale University and held the Karl F. Hasselmann Endowed Chair Professorship in Bioengineering at Rice University. He is currently involved in research and entrepreneurial activities at various consultancy firms. Ariel Fernández authored three books on translational medicine and biophysics, and published 360 papers in professional journals. He holds two patents in the field of biotechnology.
Mathematical Biophysics
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Author : Andrew Rubin
language : en
Publisher: Springer Science & Business Media
Release Date : 2013-11-26
Mathematical Biophysics written by Andrew Rubin 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 2013-11-26 with Science categories.
This book presents concise descriptions and analysis of the classical and modern models used in mathematical biophysics. The authors ask the question "what new information can be provided by the models that cannot be obtained directly from experimental data?" Actively developing fields such as regulatory mechanisms in cells and subcellular systems and electron transport and energy transport in membranes are addressed together with more classical topics such as metabolic processes, nerve conduction and heart activity, chemical kinetics, population dynamics, and photosynthesis. The main approach is to describe biological processes using different mathematical approaches necessary to reveal characteristic features and properties of simulated systems. With the emergence of powerful mathematics software packages such as MAPLE, Mathematica, Mathcad, and MatLab, these methodologies are now accessible to a wide audience.
Algorithms In Structural Molecular Biology
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Author : Bruce R. Donald
language : en
Publisher: MIT Press
Release Date : 2023-08-15
Algorithms In Structural Molecular Biology written by Bruce R. Donald and has been published by MIT Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-08-15 with Science categories.
An overview of algorithms important to computational structural biology that addresses such topics as NMR and design and analysis of proteins.Using the tools of information technology to understand the molecular machinery of the cell offers both challenges and opportunities to computational scientists. Over the past decade, novel algorithms have been developed both for analyzing biological data and for synthetic biology problems such as protein engineering. This book explains the algorithmic foundations and computational approaches underlying areas of structural biology including NMR (nuclear magnetic resonance); X-ray crystallography; and the design and analysis of proteins, peptides, and small molecules. Each chapter offers a concise overview of important concepts, focusing on a key topic in the field. Four chapters offer a short course in algorithmic and computational issues related to NMR structural biology, giving the reader a useful toolkit with which to approach the fascinating yet thorny computational problems in this area. A recurrent theme is understanding the interplay between biophysical experiments and computational algorithms. The text emphasizes the mathematical foundations of structural biology while maintaining a balance between algorithms and a nuanced understanding of experimental data. Three emerging areas, particularly fertile ground for research students, are highlighted: NMR methodology, design of proteins and other molecules, and the modeling of protein flexibility. The next generation of computational structural biologists will need training in geometric algorithms, provably good approximation algorithms, scientific computation, and an array of techniques for handling noise and uncertainty in combinatorial geometry and computational biophysics. This book is an essential guide for young scientists on their way to research success in this exciting field.
Biophysics For Therapeutic Protein Development
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Author : Linda O. Narhi
language : en
Publisher: Springer Science & Business Media
Release Date : 2013-02-26
Biophysics For Therapeutic Protein Development written by Linda O. Narhi 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 2013-02-26 with Medical categories.
This book can be used to provide insight into this important application of biophysics for those who are planning a career in protein therapeutic development, and for those outside this area who are interested in understanding it better. The initial chapters describe the underlying theory, and strengths and weaknesses of the different techniques commonly used during therapeutic development. The majority of the chapters discuss the applications of these techniques, including case studies, across the product lifecycle from early discovery, where the focus is on identifying targets, and screening for potential drug product candidates, through expression and purification, large scale production, formulation development, lot-to-lot comparability studies, and commercial support including investigations.
A Mathematical Approach To Multilevel Multiscale Health Interventions
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Author : Rodrick Wallace
language : en
Publisher: World Scientific
Release Date : 2013
A Mathematical Approach To Multilevel Multiscale Health Interventions written by Rodrick Wallace and has been published by World Scientific this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013 with Business & Economics categories.
This book, based on published studies, takes a unique perspective on the 30-year collapse of pharmaceutical industry productivity in the search for small molecule OC magic bulletOCO interventions. The relentless escalation of inflation-adjusted cost per approved medicine in the United States OCo from $200 million in 1950 to $1.2 billion in 2010 OCo has driven industry giants to, at best, slavish imitation in drug design, and at worst, abandonment of research and embracing of widespread fraud in consumer marketing.The book adapts formalism across a number of disciplines to the strategy for design of mutilevel interventions, focusing first on molecular, cellular, and larger scale examples, and then extending the argument to the simplifications provided by the dominant role of social and cultural structures and processes in individual and population patterns of health and illness.In place of OC magic bulletsOCO, we must now apply OC magic strategiesOCO that act across both the scale and level of organization. This book provides an introductory roadmap to the new tools that will be needed for the design of such strategies."
Protein Folding Kinetics
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Author : Bengt Nölting
language : en
Publisher: Springer Science & Business Media
Release Date : 2005-12-05
Protein Folding Kinetics written by Bengt Nölting 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 2005-12-05 with Science categories.
First methods book which includes many detailed descriptions Absolutely needed and thus timely for the scientific community Comprises 15% more content and includes the mentioned special features
Biophysical Approaches For The Study Of Membrane Structure Part B
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Author :
language : en
Publisher: Elsevier
Release Date : 2024-07-21
Biophysical Approaches For The Study Of Membrane Structure Part B written by and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2024-07-21 with Science categories.
Biophysical Approaches for the Study of Membrane Structure, Part B, Volume 701 explores lipid membrane asymmetry and lateral heterogeneity. A burst of recent research has shown that bilayers whose leaflets differ in their physical properties—such as composition, phase state, or lateral stress—exhibit many fascinating new characteristics, but also pose a host of challenges related to their creation, characterization, simulation, and theoretical description. Chapters in this new release include Characterization of domain formation in complex membranes: Analyzing the bending modulus from simulations of complex membranes, The density-threshold affinity: Calculating lipid binding affinities from unbiased Coarse-Grain Molecular Dynamics simulations, and much more.Additional sections cover Uncertainty quantification for trans-membrane stresses and moments from simulation, Using molecular dynamics simulations to generate small-angle scattering curves and cryo-EM images of proteoliposomes, Binary Bilayer Simulations for Partitioning Within Membranes, Modeling Asymmetric Cell Membranes at All-atom Resolution, Multiscale remodeling of biomembranes and vesicles, Building complex membranes with Martini 3, Predicting lipid sorting in curved bilayer membranes, Simulating asymmetric membranes using P21 periodic boundary conditions, and many other interesting topics. - Explore the state-of-the-art of lipid membrane asymmetry - Covers experimental, theoretical, and computational techniques to create and characterize asymmetric lipid membranes - Teaches how these kinds of approaches create and characterize laterally inhomogeneous membranes
Water In Biomechanical And Related Systems
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Author : Adam Gadomski
language : en
Publisher: Springer Nature
Release Date : 2021-04-21
Water In Biomechanical And Related Systems written by Adam Gadomski and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-04-21 with Science categories.
The contributed volume puts emphasis on a superior role of water in (bio)systems exposed to a mechanical stimulus. It is well known that water plays an extraordinary role in our life. It feeds mammalian or other organism after distributing over its whole volume to support certain physiological and locomotive (friction-adhesion) processes to mention but two of them, both of extreme relevance. Water content, not only in the mammalian organism but also in other biosystems such as whether those of soil which is equipped with microbiome or the ones pertinent to plants, having their own natural network of water vessels, is always subjected to a force field.The decisive force field applied to the biosystems makes them biomechanically agitated irrespective of whether they are subjected to external or internal force-field conditions. It ought to be noted that the decisive mechanical factor shows up in a close relation with the space-and-time scale in which it is causing certain specific phenomena to occur.The scale problem, emphasizing the range of action of gravitational force, thus the millimeter or bigger force vs. distance scale, is supposed to enter the so-called macroscale approach to water transportation through soil or plants’ roots system. It is merely related to a percolation problem, which assumes to properly inspect the random network architecture assigned to the biosystems invoked. The capillarity conditions turn out to be of prior importance, and the porous-medium effect has to be treated, and solved in a fairly approximate way.The deeper the scale is penetrated by a force-exerting and hydrated agent the more non-gravitational force fields manifest. This can be envisaged in terms of the corresponding thermodynamic (non-Newtonian) forces, and the phenomena of interest are mostly attributed to suitable changes of the osmotic pressure. In low Reynolds number conditions, thus in the (sub)micrometer distance-scale zone, they are related with the corresponding viscosity changes of the aqueous, e.g. cytoplasmatic solutions, of semi-diluted and concentrated (but also electrolytic) characteristics. For example, they can be observed in articulating systems of mammals, in their skin, and to some extent, in other living beings, such as lizards, geckos or even insects. Through their articulating devices an external mechanical stimulus is transmitted from macro- to nanoscale, wherein the corresponding osmotic-pressure conditions apply. The content of the proposed work can be distributed twofold. First, the biomechanical mammalian-type (or, similar) systems with extraordinary relevance of water for their functioning will be presented, also including a presentation of water itself as a key physicochemical system/medium. Second, the suitably chosen related systems, mainly of soil and plant addressing provenience, will be examined thoroughly. As a common denominator of all of them, it is proposed to look at their hydrophobic and/or (de)hydration effects, and how do they impact on their basic mechanical (and related, such as chemo-mechanical or piezoelectric, etc.) properties. An additional tacit assumption employed throughout the monograph concerns statistical scalability of the presented biosystems which is equivalent to take for granted a certain similarity between local and global system’s properties, mostly those of mechanical nature. The presented work’s chapters also focus on biodiversity and ecological aspects in the world of animals and plants, and the related systems. The chapters’ contents underscore the bioinspiration as the key landmark of the proposed monograph.
Molecular And Cellular Biophysics
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Author : Meyer B. Jackson
language : en
Publisher: Cambridge University Press
Release Date : 2006-01-12
Molecular And Cellular Biophysics written by Meyer B. Jackson 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 2006-01-12 with Science categories.
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.
Biophysics
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Author : Mark C. Leake
language : en
Publisher: CRC Press
Release Date : 2016-09-15
Biophysics written by Mark C. Leake and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-09-15 with Medical categories.
An Up-to-Date Toolbox for Probing Biology Biophysics: Tools and Techniques covers the experimental and theoretical tools and techniques of biophysics. It addresses the purpose, science, and application of all physical science instrumentation and analysis methods used in current research labs. The book first presents the historical background, concepts, and motivation for using a physical science toolbox to understand biology. It then familiarizes undergraduate students from the physical sciences with essential biological knowledge. The text subsequently focuses on experimental biophysical techniques that primarily detect biological components or measure/control biological forces. The author describes the science and application of key tools used in imaging, detection, general quantitation, and biomolecular interaction studies, which span multiple length and time scales of biological processes both in the test tube and in the living organism. Moving on to theoretical biophysics tools, the book presents computational and analytical mathematical methods for tackling challenging biological questions including exam-style questions at the end of each chapter as well as step-by-step solved exercises. It concludes with a discussion of the future of this exciting field. Future innovators will need to be trained in multidisciplinary science to be successful in industry, academia, and government support agencies. Addressing this challenge, this textbook educates future leaders on the development and application of novel physical science approaches to solve complex problems linked to biological questions. Features: Provides the full, modern physical science toolbox of experimental and analytical techniques, such as bulk ensemble methods, single-molecule tools, and live-cell and test tube methods Incorporates worked examples for the most popular physical science tools, including full diagrams and a summary of the science involved in the application of the tool Reinforces the understanding of key concepts and biological questions A solutions manual is available upon qualifying course adoption.