Modeling Biological Systems

Author: James W. Haefner
Publisher: Springer Science & Business Media
ISBN: 9781461541196
Release Date: 2012-12-06
Genre: Science

This book is intended as a text for a first course on creating and analyzing computer simulation models of biological systems. The expected audience for this book are students wishing to use dynamic models to interpret real data mueh as they would use standard statistical techniques. It is meant to provide both the essential principles as well as the details and equa tions applicable to a few particular systems and subdisciplines. Biological systems, however, encompass a vast, diverse array of topics and problems. This book discusses only a select number of these that I have found to be useful and interesting to biologists just beginning their appreciation of computer simulation. The examples chosen span classical mathematical models of well-studied systems to state-of-the-art topics such as cellular automata and artificial life. I have stressed the relationship between the models and the biology over mathematical analysis in order to give the reader a sense that mathematical models really are useful to biologists. In this light, I have sought examples that address fundamental and, I think, interesting biological questions. Almost all of the models are directly COIIl pared to quantitative data to provide at least a partial demonstration that some biological models can accurately predict.

Boden kologie interdisziplin r

Author: Hartmut Koehler
Publisher: Springer-Verlag
ISBN: 9783642584954
Release Date: 2013-03-08
Genre: Nature

Mit diesem Buch sollen aktuelle Entwicklungen der Bodenökologie einem breiteren Publikum zugänglich gemacht und Anknüpfungen zu deren Anwendungsfeldern hergestellt werden. Damit wird ein integrierter Überblick zu bodenökologischer Forschung und Praxis geliefert. Die Autoren stellen ökosystemare und interdisziplinäre Bezüge in den Vordergrund. Hierdurch lassen sich Anknüpfungen zu den lebensweltlichen Aufgabenstellungen und deren Lösungen aus der Perspektive konkreter Berufssituationen herstellen. Das Buch setzt zwar eine gewisse naturwissenschaftliche Vorbildung voraus, ist aber so verfaßt, daß seine Inhalte sowohl von Praktikern als auch Wissenschaftlern anderer Disziplinen nachvollzogen werden können. Eine enge Anbindung an einen fachspezifischen Ausbildungsstand ist nicht gegeben. Erfahrungsberichte aus der Berufspraxis von Bodenökologen runden den Inhalt ab.

A Systems Theoretic Approach to Systems and Synthetic Biology I Models and System Characterizations

Author: Vishwesh Kulkarni
Publisher: Springer
ISBN: 9789401790413
Release Date: 2014-07-03
Genre: Medical

The complexity of biological systems has intrigued scientists from many disciplines and has given birth to the highly influential field of systems biology wherein a wide array of mathematical techniques, such as flux balance analysis, and technology platforms, such as next generation sequencing, is used to understand, elucidate, and predict the functions of complex biological systems. More recently, the field of synthetic biology, i.e., de novo engineering of biological systems, has emerged. Scientists from various fields are focusing on how to render this engineering process more predictable, reliable, scalable, affordable, and easy. Systems and control theory is a branch of engineering and applied sciences that rigorously deals with the complexities and uncertainties of interconnected systems with the objective of characterising fundamental systemic properties such as stability, robustness, communication capacity, and other performance metrics. Systems and control theory also strives to offer concepts and methods that facilitate the design of systems with rigorous guarantees on these properties. Over the last 100 years, it has made stellar theoretical and technological contributions in diverse fields such as aerospace, telecommunication, storage, automotive, power systems, and others. Can it have, or evolve to have, a similar impact in biology? The chapters in this book demonstrate that, indeed, systems and control theoretic concepts and techniques can have a significant impact in systems and synthetic biology. Volume I provides a panoramic view that illustrates the potential of such mathematical methods in systems and synthetic biology. Recent advances in systems and synthetic biology have clearly demonstrated the benefits of a rigorous and systematic approach rooted in the principles of systems and control theory - not only does it lead to exciting insights and discoveries but it also reduces the inordinately lengthy trial-and-error process of wet-lab experimentation, thereby facilitating significant savings in human and financial resources. In Volume I, some of the leading researchers in the field of systems and synthetic biology demonstrate how systems and control theoretic concepts and techniques can be useful, or should evolve to be useful, in order to understand how biological systems function. As the eminent computer scientist Donald Knuth put it, "biology easily has 500 years of exciting problems to work on". This edited book presents but a small fraction of those for the benefit of (1) systems and control theorists interested in molecular and cellular biology and (2) biologists interested in rigorous modelling, analysis and control of biological systems.

Systems Biology

Author: Robert A. Meyers
Publisher: John Wiley & Sons
ISBN: 9783527326075
Release Date: 2012-07-02
Genre: Science

Systems biology is a relatively new biological study field that focuses on the systematic study of complex interactions in biological systems, thus using a new perspective (integration instead of reduction) to study them. Particularly from year 2000 onwards, the term is used widely in the biosciences, and in a variety of contexts. Systems biology is the study of the interconnected aspect of molecular, cellular, tissue, whole animal and ecological processes, and comprises mathematical and mechanistic studies of dynamical, mesoscopic, open, spatiotemporally defined, nonlinear, complex systems that are far from thermodynamic equilibrium.

A Course in Mathematical Biology

Author: Gerda de Vries
Publisher: SIAM
ISBN: 9780898716122
Release Date: 2006-07-01
Genre: Mathematics

This is the only book that teaches all aspects of modern mathematical modeling and that is specifically designed to introduce undergraduate students to problem solving in the context of biology. Included is an integrated package of theoretical modeling and analysis tools, computational modeling techniques, and parameter estimation and model validation methods, with a focus on integrating analytical and computational tools in the modeling of biological processes. Divided into three parts, it covers basic analytical modeling techniques; introduces computational tools used in the modeling of biological problems; and includes various problems from epidemiology, ecology, and physiology. All chapters include realistic biological examples, including many exercises related to biological questions. In addition, 25 open-ended research projects are provided, suitable for students. An accompanying Web site contains solutions and a tutorial for the implementation of the computational modeling techniques. Calculations can be done in modern computing languages such as Maple, Mathematica, and MATLAB?.

Mathematical Models in Biology

Author: Leah Edelstein-Keshet
Publisher: SIAM
ISBN: 0898719143
Release Date: 1988
Genre: Biology

Mathematical Models in Biology is an introductory book for readers interested in biological applications of mathematics and modeling in biology. A favorite in the mathematical biology community, it shows how relatively simple mathematics can be applied to a variety of models to draw interesting conclusions. Connections are made between diverse biological examples linked by common mathematical themes. A variety of discrete and continuous ordinary and partial differential equation models are explored. Although great advances have taken place in many of the topics covered, the simple lessons contained in this book are still important and informative. Audience: the book does not assume too much background knowledge--essentially some calculus and high-school algebra. It was originally written with third- and fourth-year undergraduate mathematical-biology majors in mind; however, it was picked up by beginning graduate students as well as researchers in math (and some in biology) who wanted to learn about this field.

Math and Bio 2010

Author: Lynn Arthur Steen
Publisher: MAA
ISBN: 0883858185
Release Date: 2005-01-01
Genre: Mathematics

Math & Bio 2010: Linking Undergraduate Disciplines envisages a new educational paradigm in which the disciplines of mathematics and biology, currently quite separate, will be productively linked in the undergraduate science programs of the 21st century. As a science, biology depends increasingly on data, algorithms, and models; in virtually every respect, it is becoming more quantitative, more computational, and more mathematical. While these trends are related, they are not the same; they represent, rather, three different perspectives on what many are calling the "new biology." All three methods---quantitative, computational, mathematical---are spreading across the entire landscape of biological science from molecular to cellular, organismic and ecological. The aim of this volume is to alert members of both communities---biological and mathematical---to the expanding and exciting challenges of interdisciplinary work in these fields.

Design of Biomedical Devices and Systems Third Edition

Author: Dragan Primorac
Publisher: CRC Press
ISBN: 9781466569140
Release Date: 2014-07-29
Genre: Medical

Apply a Wide Variety of Design Processes to a Wide Category of Design Problems Design of Biomedical Devices and Systems, Third Edition continues to provide a real-world approach to the design of biomedical engineering devices and/or systems. Bringing together information on the design and initiation of design projects from several sources, this edition strongly emphasizes and further clarifies the standards of design procedure. Following the best practices for conducting and completing a design project, it outlines the various steps in the design process in a basic, flexible, and logical order. What’s New in the Third Edition: This latest edition contains a new chapter on biological engineering design, a new chapter on the FDA regulations for items other than devices such as drugs, new end-of-chapter problems, new case studies, and a chapter on product development. It adds mathematical modeling tools, and provides new information on FDA regulations and standards, as well as clinical trials and sterilization methods. Familiarizes the reader with medical devices, and their design, regulation, and use Considers safety aspects of the devices Contains an enhanced pedagogy Provides an overview of basic design issues Design of Biomedical Devices and Systems, Third Edition covers the design of biomedical engineering devices and/or systems, and is designed to support bioengineering and biomedical engineering students and novice engineers entering the medical device market.

MATHEMATICAL MODELS Volume I

Author: Jerzy A. Filar
Publisher: EOLSS Publications
ISBN: 9781848262423
Release Date: 2009-09-19
Genre: Mathematical models

Mathematical Models is a component of Encyclopedia of Mathematical Sciences in the global Encyclopedia of Life Support Systems (EOLSS), which is an integrated compendium of twenty one Encyclopedias. The Theme on Mathematical Models discusses matters of great relevance to our world such as: Basic Principles of Mathematical Modeling; Mathematical Models in Water Sciences; Mathematical Models in Energy Sciences; Mathematical Models of Climate and Global Change; Infiltration and Ponding; Mathematical Models of Biology; Mathematical Models in Medicine and Public Health; Mathematical Models of Society and Development. These three volumes are aimed at the following five major target audiences: University and College students Educators, Professional practitioners, Research personnel and Policy analysts, managers, and decision makers and NGOs.

Systems Science and Modeling for Ecological Economics

Author: Alexey A. Voinov
Publisher: Academic Press
ISBN: 0080886175
Release Date: 2010-07-27
Genre: Science

Modeling is a key component to sciences from mathematics to life science, including environmental and ecological studies. By looking at the underlying concepts of the software, we can make sure that we build mathematically feasible models and that we get the most out of the data and information that we have. Systems Science and Modeling for Ecological Economics shows how models can be analyzed using simple math and software to generate meaningful qualitative descriptions of system dynamics. This book shows that even without a full analytical, mathematically rigorous analysis of the equations, there may be ways to derive some qualitative understanding of the general behavior of a system. By relating some of the modeling approaches and systems theory to real-world examples the book illustrates how these approaches can help understand concepts such as sustainability, peak oil, adaptive management, optimal harvest and other practical applications. Relates modeling approaches and systems theory to real-world examples Teaches students to build mathematically feasible models and get the most out of the data and information available Wide range of applications in hydrology, population dynamics, market cycles, sustainability theory, management, and more

Models for Planning Wildlife Conservation in Large Landscapes

Author: Joshua Millspaugh
Publisher: Academic Press
ISBN: 0080920160
Release Date: 2011-04-28
Genre: Nature

A single-resource volume of information on the most current and effective techniques of wildlife modeling, Models for Planning Wildlife Conservation in Large Landscapes is appropriate for students and researchers alike. The unique blend of conceptual, methodological, and application chapters discusses research, applications and concepts of modeling and presents new ideas and strategies for wildlife habitat models used in conservation planning. The book makes important contributions to wildlife conservation of animals in several ways: (1) it highlights historical and contemporary advancements in the development of wildlife habitat models and their implementation in conservation planning; (2) it provides practical advice for the ecologist conducting such studies; and (3) it supplies directions for future research including new strategies for successful studies. Intended to provide a recipe for successful development of wildlife habitat models and their implementation in conservation planning, the book could be used in studying wildlife habitat models, conservation planning, and management techniques. Additionally it may be a supplemental text in courses dealing with quantitative assessment of wildlife populations. Additionally, the length of the book would be ideal for graduate student seminar course. Using wildlife habitat models in conservation planning is of considerable interest to wildlife biologists. With ever tightening budgets for wildlife research and planning activities, there is a growing need to use computer methods. Use of simulation models represents the single best alternative. However, it is imperative that these techniques be described in a single source. Moreover, biologists should be made aware of alternative modeling techniques. It is also important that practical guidance be provided to biologists along with a demonstration of utility of these procedures. Currently there is little guidance in the wildlife or natural resource planning literature on how best to incorporate wildlife planning activities, particularly community-based approaches. Now is the perfect time for a synthestic publication that clearly outlines the concepts and available methods, and illustrates them. Only single resource book of information not only on various wildlife modeling techniques, but also with practical guidance on the demonstrated utility of each based on real-world conditions. Provides concepts, methods and applications for wildlife ecologists and others within a GIS context. Written by a team of subject-area experts

Computational Chemistry and Molecular Modeling

Author: K. I. Ramachandran
Publisher: Springer Science & Business Media
ISBN: 9783540773047
Release Date: 2008-05-20
Genre: Science

The gap between introductory level textbooks and highly specialized monographs is filled by this modern textbook. It provides in one comprehensive volume the in-depth theoretical background for molecular modeling and detailed descriptions of the applications in chemistry and related fields like drug design, molecular sciences, biomedical, polymer and materials engineering. Special chapters on basic mathematics and the use of respective software tools are included. Numerous numerical examples, exercises and explanatory illustrations as well as a web site with application tools (http://www.amrita.edu/cen/ccmm) support the students and lecturers.

Environmental Systems Analysis with MATLAB

Author: Stefano Marsili-Libelli
Publisher: CRC Press
ISBN: 9781498706360
Release Date: 2016-04-21
Genre: Mathematics

Explore the inner workings of environmental processes using a mathematical approach. Environmental Systems Analysis with MATLAB® combines environmental science concepts and system theory with numerical techniques to provide a better understanding of how our environment works. The book focuses on building mathematical models of environmental systems, and using these models to analyze their behaviors. Designed with the environmental professional in mind, it offers a practical introduction to developing the skills required for managing environmental modeling and data handling. The book follows a logical sequence from the basic steps of model building and data analysis to implementing these concepts into working computer codes, and then on to assessing their results. It describes data processing (rarely considered in environmental analysis); outlines the tools needed to successfully analyze data and develop models, and moves on to real-world problems. The author illustrates in the first four chapters the methodological aspects of environmental systems analysis, and in subsequent chapters applies them to specific environmental concerns. The accompanying software bundle is freely downloadable from the book web site. It follows the chapters sequence and provides a hands-on experience, allowing the reader to reproduce the figures in the text and experiment by varying the problem setting. A basic MATLAB literacy is required to get the most out of the software. Ideal for coursework and self-study, this offering: Deals with the basic concepts of environmental modeling and identification, both from the mechanistic and the data-driven viewpoint Provides a unifying methodological approach to deal with specific aspects of environmental modeling: population dynamics, flow systems, and environmental microbiology Assesses the similarities and the differences of microbial processes in natural and man-made environments Analyzes several aquatic ecosystems’ case studies Presents an application of an extended Streeter & Phelps (S&P) model Describes an ecological method to estimate the bioavailable nutrients in natural waters Considers a lagoon ecosystem from several viewpoints, including modeling and management, and more

Nostradamus 2013 Prediction Modeling and Analysis of Complex Systems

Author: Ivan Zelinka
Publisher: Springer Science & Business Media
ISBN: 9783319005423
Release Date: 2013-11-13
Genre: Computers

Prediction of behavior of the dynamical systems, analysis and modeling of its structure is vitally important problem in engineering, economy and science today. Examples of such systems can be seen in the world around us and of course in almost every scientific discipline including such “exotic” domains like the earth’s atmosphere, turbulent fluids, economies (exchange rate and stock markets), population growth, physics (control of plasma), information flow in social networks and its dynamics, chemistry and complex networks. To understand such dynamics and to use it in research or industrial applications, it is important to create its models. For this purpose there is rich spectra of methods, from classical like ARMA models or Box Jenkins method to such modern ones like evolutionary computation, neural networks, fuzzy logic, fractal geometry, deterministic chaos and more. This proceeding book is a collection of the accepted papers to conference Nostradamus that has been held in Ostrava, Czech Republic. Proceeding also comprises of outstanding keynote speeches by distinguished guest speakers: Guanrong Chen (Hong Kong), Miguel A. F. Sanjuan (Spain), Gennady Leonov and Nikolay Kuznetsov (Russia), Petr Škoda (Czech Republic). The main aim of the conference is to create periodical possibility for students, academics and researchers to exchange their ideas and novel methods. This conference will establish forum for presentation and discussion of recent trends in the area of applications of various predictive methods for researchers, students and academics.