Download or read book Multiscale Characterization of Biological Systems written by Vikas Tomar and published by Springer. This book was released on 2015-11-30 with total page 103 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book covers the latest research work done in the area of interface mechanics of collagen and chitin-based biomaterials along with various techniques that can be used to understand mechanics of biological systems and materials. Topics covered include Raman spectroscopy of biological systems, scale dependence of the mechanical properties and microstructure of crustaceans thin films as biomimetic materials, as well as the role of molecular-level modeling. The use of nanomechanics to investigate interface thermomechanics of collagen and chitin-based biomaterials is also covered in detail. This book also: • Details spectroscope experiments as well as nanomechanic experiments • Reviews exhaustively phenomenological models and Raman spectroscopy of biological systems • Covers the latest in multiscaling for molecular models to predict lab-scale sample properties and investigates interface thermomechanics

Download or read book Multiscale Analysis and Nonlinear Dynamics written by Misha Meyer Pesenson and published by John Wiley & Sons. This book was released on 2013-09-13 with total page 307 pages. Available in PDF, EPUB and Kindle. Book excerpt: Since modeling multiscale phenomena in systems biology and neuroscience is a highly interdisciplinary task, the editor of the book invited experts in bio-engineering, chemistry, cardiology, neuroscience, computer science, and applied mathematics, to provide their perspectives. Each chapter is a window into the current state of the art in the areas of research discussed and the book is intended for advanced researchers interested in recent developments in these fields. While multiscale analysis is the major integrating theme of the book, its subtitle does not call for bridging the scales from genes to behavior, but rather stresses the unifying perspective offered by the concepts referred to in the title. It is believed that the interdisciplinary approach adopted here will be beneficial for all the above mentioned fields.

Download or read book Multiscale Modelling in Biomedical Engineering written by Dimitrios I. Fotiadis and published by John Wiley & Sons. This book was released on 2023-05-05 with total page 404 pages. Available in PDF, EPUB and Kindle. Book excerpt: Multiscale Modelling in Biomedical Engineering Discover how multiscale modeling can enhance patient treatment and outcomes In Multiscale Modelling in Biomedical Engineering, an accomplished team of biomedical professionals delivers a robust treatment of the foundation and background of a general computational methodology for multi-scale modeling. The authors demonstrate how this methodology can be applied to various fields of biomedicine, with a particular focus on orthopedics and cardiovascular medicine. The book begins with a description of the relationship between multiscale modeling and systems biology before moving on to proceed systematically upwards in hierarchical levels from the molecular to the cellular, tissue, and organ level. It then examines multiscale modeling applications in specific functional areas, like mechanotransduction, musculoskeletal, and cardiovascular systems. Multiscale Modelling in Biomedical Engineering offers readers experiments and exercises to illustrate and implement the concepts contained within. Readers will also benefit from the inclusion of: A thorough introduction to systems biology and multi-scale modeling, including a survey of various multi-scale methods and approaches and analyses of their application in systems biology Comprehensive explorations of biomedical imaging and nanoscale modeling at the molecular, cell, tissue, and organ levels Practical discussions of the mechanotransduction perspective, including recent progress and likely future challenges In-depth examinations of risk prediction in patients using big data analytics and data mining Perfect for undergraduate and graduate students of bioengineering, biomechanics, biomedical engineering, and medicine, Multiscale Modelling in Biomedical Engineering will also earn a place in the libraries of industry professional and researchers seeking a one-stop reference to the basic engineering principles of biological systems.

Download or read book Understanding the Dynamics of Biological Systems written by Werner Dubitzky and published by Springer Science & Business Media. This book was released on 2011-01-07 with total page 249 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is intended as a communication platform to bridge the cultural, conceptual, and technological gap among the key systems biology disciplines of biology, mathematics, and information technology. To support this goal, contributors were asked to adopts an approach that appeals to audiences from different backgrounds.

Download or read book Materiomics Multiscale Mechanics of Biological Materials and Structures written by Markus J. Buehler and published by Springer Science & Business Media. This book was released on 2013-11-18 with total page 152 pages. Available in PDF, EPUB and Kindle. Book excerpt: Multiscale mechanics of hierarchical materials plays a crucial role in understanding and engineering biological and bioinspired materials and systems. The mechanical science of hierarchical tissues and cells in biological systems has recently emerged as an exciting area of research and provides enormous opportunities for innovative basic research and technological advancement. Such advances could enable us to provide engineered materials and structure with properties that resemble those of biological systems, in particular the ability to self-assemble, to self-repair, to adapt and evolve, and to provide multiple functions that can be controlled through external cues. This book presents material from leading researchers in the field of mechanical sciences of biological materials and structure, with the aim to introduce methods and applications to a wider range of engineers.

Download or read book Systems Biology written by Aleš Prokop and published by Springer Science & Business Media. This book was released on 2013-08-28 with total page 569 pages. Available in PDF, EPUB and Kindle. Book excerpt: Growth in the pharmaceutical market has slowed down – almost to a standstill. One reason is that governments and other payers are cutting costs in a faltering world economy. But a more fundamental problem is the failure of major companies to discover, develop and market new drugs. Major drugs losing patent protection or being withdrawn from the market are simply not being replaced by new therapies – the pharmaceutical market model is no longer functioning effectively and most pharmaceutical companies are failing to produce the innovation needed for success. This multi-authored new book looks at a vital strategy which can bring innovation to a market in need of new ideas and new products: Systems Biology (SB). Modeling is a significant task of systems biology. SB aims to develop and use efficient algorithms, data structures, visualization and communication tools to orchestrate the integration of large quantities of biological data with the goal of computer modeling. It involves the use of computer simulations of biological systems, such as the networks of metabolites comprise signal transduction pathways and gene regulatory networks to both analyze and visualize the complex connections of these cellular processes. SB involves a series of operational protocols used for performing research, namely a cycle composed of theoretical, analytic or computational modeling to propose specific testable hypotheses about a biological system, experimental validation, and then using the newly acquired quantitative description of cells or cell processes to refine the computational model or theory.

Download or read book Chemical Tools for Imaging Manipulating and Tracking Biological Systems Diverse Methods for Prokaryotic and Eukaryotic Systems written by and published by Academic Press. This book was released on 2020-05-14 with total page 360 pages. Available in PDF, EPUB and Kindle. Book excerpt: Chemical Tools for Imaging, Manipulating, and Tracking Biological Systems: Diverse Methods for Prokaryotic and Eukaryotic Systems, Volume 638, the latest release in the Methods in Enzymology series, continues the legacy of this premier serial with quality chapters authored by leaders in the field. Sample chapters from this new release include In vitro characterization of the colibactin-activating peptidase ClbP enables development of a fluorogenic activity probe, Using FDAA probes to study cell division in Bacillus subtilis, Chemoenzymatic synthesis of UDP-sugars, Chemical tools for selective activity profiling of bacterial penicillin-binding proteins, Chemical Probes Reveal and Extraseptal Mode of Cross-linking in Staphylococcus Aureus, and much more. Provides the authority and expertise of leading contributors from an international board of authors Presents the latest release in the Methods in Enzymology series Includes the latest information on retinoid signaling pathways

Download or read book Stochastic Processes Multiscale Modeling and Numerical Methods for Computational Cellular Biology written by David Holcman and published by Springer. This book was released on 2017-10-04 with total page 377 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on the modeling and mathematical analysis of stochastic dynamical systems along with their simulations. The collected chapters will review fundamental and current topics and approaches to dynamical systems in cellular biology. This text aims to develop improved mathematical and computational methods with which to study biological processes. At the scale of a single cell, stochasticity becomes important due to low copy numbers of biological molecules, such as mRNA and proteins that take part in biochemical reactions driving cellular processes. When trying to describe such biological processes, the traditional deterministic models are often inadequate, precisely because of these low copy numbers. This book presents stochastic models, which are necessary to account for small particle numbers and extrinsic noise sources. The complexity of these models depend upon whether the biochemical reactions are diffusion-limited or reaction-limited. In the former case, one needs to adopt the framework of stochastic reaction-diffusion models, while in the latter, one can describe the processes by adopting the framework of Markov jump processes and stochastic differential equations. Stochastic Processes, Multiscale Modeling, and Numerical Methods for Computational Cellular Biology will appeal to graduate students and researchers in the fields of applied mathematics, biophysics, and cellular biology.

Download or read book Multiscale Analysis and Visualization of Biophysical Structure and Biochemical Function with Computational Microscopy written by Sophia P. Hirakis and published by . This book was released on 2019 with total page 183 pages. Available in PDF, EPUB and Kindle. Book excerpt: The evasive source and cause of a disease is oftentimes smaller than you think. Imagine, though, chasing something that you can't actually see. Fortunately for the modern-day biomedical scientist, computational tools harnessing the power of physics using the language of mathematics are able to see the invisible. Computational microscopy is a tool developed to visualize the energetic behavior of biological systems. With progressive advancements in computer graphics and the development of mathematical theories to explain biological behavior, computational microscopy has become a useful tool used by many kinds scientists over the greater half of the last century to understand the energetic underpinnings of a system's behavior. Unlike most "microscopes," it allows us to visualize extremely small entities like atoms, molecules, proteins, and cells. More importantly, it allows us to spatiotemporally transcend scales to understand the dynamics of our systems. Like a biophysically detailed time-lapse, we are able to see through time, to understand chemical "butterfly effects" that transcend the time and space scale at which they operate. In this thesis, the computational microscope is applied to multiple systems to visualize and analyze the physicochemical mechanisms that underlie biological function. Specifically, the thesis is centered on the structure of proteins and subcellular mechanisms driving cardiac function and dysfunction. In the first chapter, we address the concept of multiscale biological simulations, integrating information from atomistic scales toward cellular models of Protein Kinase A. The second chapter demonstrates the ways that atomistic simulations can be applied to the study of the structural interactions in protein-protein complexes vital to the infectious mechanisms of Group-A Streptococcus. In the third chapter, two scales of biological simulation are used in tandem to understand the structure and the kinetic behavior of Protein Kinase A RIalpha. The final chapter incorporates the kinetic understanding of relevant species in a realistic subcellular geometry to investigate signaling mechanisms that underlie calcium activation in healthy and diseased hearts. Particular attention is paid to the way that structural alterations on the atomistic, molecular, and membranous level alter the behavior of biological systems. Holistically, this thesis is centered on the use of computational tools and the development of realistic models that can reproduce experimental findings and predict the behavior of systems, driving the creation of new hypotheses.

Download or read book Multiscale Methods written by Jacob Fish and published by OUP Oxford. This book was released on 2009-10-22 with total page 624 pages. Available in PDF, EPUB and Kindle. Book excerpt: Small scale features and processes occurring at nanometer and femtosecond scales have a profound impact on what happens at a larger scale and over an extensive period of time. The primary objective of this volume is to reflect the state-of-the-art in multiscale mathematics, modeling, and simulations and to address the following barriers: What is the information that needs to be transferred from one model or scale to another and what physical principles must be satisfied during the transfer of information? What are the optimal ways to achieve such transfer of information? How can variability of physical parameters at multiple scales be quantified and how can it be accounted for to ensure design robustness? The multiscale approaches in space and time presented in this volume are grouped into two main categories: information-passing and concurrent. In the concurrent approaches various scales are simultaneously resolved, whereas in the information-passing methods the fine scale is modeled and its gross response is infused into the continuum scale. The issue of reliability of multiscale modeling and simulation tools which focus on a hierarchy of multiscale models and an a posteriori model of error estimation including uncertainty quantification, is discussed in several chapters. Component software that can be effectively combined to address a wide range of multiscale simulations is also described. Applications range from advanced materials to nanoelectromechanical systems (NEMS), biological systems, and nanoporous catalysts where physical phenomena operates across 12 orders of magnitude in time scales and 10 orders of magnitude in spatial scales. This volume is a valuable reference book for scientists, engineers and graduate students practicing in traditional engineering and science disciplines as well as in emerging fields of nanotechnology, biotechnology, microelectronics and energy.

Download or read book Surface Analysis and Techniques in Biology written by Vincent S. Smentkowski and published by Springer Science & Business Media. This book was released on 2014-03-18 with total page 333 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book summarizes the main surface analysis techniques that are being used to study biological specimens/systems. The compilation of chapters in this book highlight the benefits that surface analysis provides. The outer layer of bulk solid or liquid samples is referred to as the surface of the sample/material. At the surface, the composition, microstructure, phase, chemical bonding, electronic states, and/or texture is often different than that of the bulk material. The outer surface is where many material interactions/reactions take place. This is especially true biomaterials which may be fabricated into bio-devices and in turn implanted into tissues and organs. Surfaces of biomaterials (synthetic or modified natural materials) are of critical importance since the surface is typically the only part of the biomaterial/bio-device that comes in contact with the biological system. Analytical techniques are required to characterize the surface of biomaterials and quantify their impact in real-world biological systems. Surface analysis of biological materials started in the 1960’s and the number of researchers working in this area have increased very rapidly since then, a number of advances have been made to standard surface analytical instrumentation, and a number of new instruments have been introduced.

Download or read book Computational Modeling of Biological Systems written by Nikolay V Dokholyan and published by Springer Science & Business Media. This book was released on 2012-02-12 with total page 360 pages. Available in PDF, EPUB and Kindle. Book excerpt: Computational modeling is emerging as a powerful new approach to study and manipulate biological systems. Multiple methods have been developed to model, visualize, and rationally alter systems at various length scales, starting from molecular modeling and design at atomic resolution to cellular pathways modeling and analysis. Higher time and length scale processes, such as molecular evolution, have also greatly benefited from new breeds of computational approaches. This book provides an overview of the established computational methods used for modeling biologically and medically relevant systems.

Download or read book Towards a Mathematical Theory of Complex Biological Systems written by Carlo Bianca and published by World Scientific. This book was released on 2011 with total page 227 pages. Available in PDF, EPUB and Kindle. Book excerpt: This monograph has the ambitious aim of developing a mathematical theory of complex biological systems with special attention to the phenomena of ageing, degeneration and repair of biological tissues under individual self-repair actions that may have good potential in medical therapy. The approach to mathematically modeling biological systems needs to tackle the additional difficulties generated by the peculiarities of living matter. These include the lack of invariance principles, abilities to express strategies for individual fitness, heterogeneous behaviors, competition up to proliferative and/or destructive actions, mutations, learning ability, evolution and many others. Applied mathematicians in the field of living systems, especially biological systems, will appreciate the special class of integro-differential equations offered here for modeling at the molecular, celular and tissue scales. A unique perspective is also presented with a number of case studies in biological modeling.

Download or read book Managing Complexity Reducing Perplexity written by Marcello Delitala and published by Springer. This book was released on 2014-06-04 with total page 140 pages. Available in PDF, EPUB and Kindle. Book excerpt: ”Managing Complexity, Reducing Perplexity” is devoted to an overview of the status of the art in the study of complex systems, with particular focus on the analysis of systems pertaining to living matter. Both senior scientists and young researchers from diverse and prestigious institutions with a deliberately interdisciplinary cut were invited, in order to compare approaches and problems from different disciplines. The common aim of the contributions was to analyze the complexity of living systems by means of new mathematical paradigms that are more adherent to reality and which are able to generate both exploratory and predictive models that are capable of achieving a deeper insight into life science phenomena.

Download or read book Dynamic Systems Biology Modeling and Simulation written by Joseph DiStefano III and published by Academic Press. This book was released on 2015-01-10 with total page 886 pages. Available in PDF, EPUB and Kindle. Book excerpt: Dynamic Systems Biology Modeling and Simuation consolidates and unifies classical and contemporary multiscale methodologies for mathematical modeling and computer simulation of dynamic biological systems – from molecular/cellular, organ-system, on up to population levels. The book pedagogy is developed as a well-annotated, systematic tutorial – with clearly spelled-out and unified nomenclature – derived from the author's own modeling efforts, publications and teaching over half a century. Ambiguities in some concepts and tools are clarified and others are rendered more accessible and practical. The latter include novel qualitative theory and methodologies for recognizing dynamical signatures in data using structural (multicompartmental and network) models and graph theory; and analyzing structural and measurement (data) models for quantification feasibility. The level is basic-to-intermediate, with much emphasis on biomodeling from real biodata, for use in real applications. - Introductory coverage of core mathematical concepts such as linear and nonlinear differential and difference equations, Laplace transforms, linear algebra, probability, statistics and stochastics topics - The pertinent biology, biochemistry, biophysics or pharmacology for modeling are provided, to support understanding the amalgam of "math modeling with life sciences - Strong emphasis on quantifying as well as building and analyzing biomodels: includes methodology and computational tools for parameter identifiability and sensitivity analysis; parameter estimation from real data; model distinguishability and simplification; and practical bioexperiment design and optimization - Companion website provides solutions and program code for examples and exercises using Matlab, Simulink, VisSim, SimBiology, SAAMII, AMIGO, Copasi and SBML-coded models - A full set of PowerPoint slides are available from the author for teaching from his textbook. He uses them to teach a 10 week quarter upper division course at UCLA, which meets twice a week, so there are 20 lectures. They can easily be augmented or stretched for a 15 week semester course - Importantly, the slides are editable, so they can be readily adapted to a lecturer's personal style and course content needs. The lectures are based on excerpts from 12 of the first 13 chapters of DSBMS. They are designed to highlight the key course material, as a study guide and structure for students following the full text content - The complete PowerPoint slide package (~25 MB) can be obtained by instructors (or prospective instructors) by emailing the author directly, at: [email protected]

Download or read book Multiscale Cancer Modeling written by Thomas S. Deisboeck and published by CRC Press. This book was released on 2010-12-08 with total page 492 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cancer is a complex disease process that spans multiple scales in space and time. Driven by cutting-edge mathematical and computational techniques, in silico biology provides powerful tools to investigate the mechanistic relationships of genes, cells, and tissues. It enables the creation of experimentally testable hypotheses, the integration of dat

Download or read book Design Modeling and Characterization of Bio Nanorobotic Systems written by Mustapha Hamdi and published by Springer Science & Business Media. This book was released on 2010-10-06 with total page 178 pages. Available in PDF, EPUB and Kindle. Book excerpt: Nanorobots represent a nanoscale device where proteins such as DNA, carbon nanotubes could act as motors, mechanical joints, transmission elements, or sensors. When these different components were assembled together they can form nanorobots with multi-degree-of-freedom, able to apply forces and manipulate objects in the nanoscale world. Design, Modeling and Characterization of Bio-Nanorobotic Systems investigates the design, assembly, simulation, and prototyping of biological and artificial molecular structures with the goal of implementing their internal nanoscale movements within nanorobotic systems in an optimized manner.