Mathematical Models of the Cell and Cell Associated Objects


Book Description

This book gives the reader a survey of hundreds results in the field of the cell and cell associated objects modeling. Applications to modeling in the areas of AIDS, cancers and life longevity are investigated in this book. Introduces and proves fundamental properties of evolutionary systems on optimal distribution of their various resources on their internal and external functions Gives detailed analysis of applications to modeling AIDS, cancers, and life longevity Introducing and grounding the respective numerical algorithms and software Detailed analysis of hundreds of scientific works in the field of mathematical modeling of the cell and cell associated objects




Mathematical Models in Molecular Cellular Biology


Book Description

Interest in theoretical biology is rapidly growing and this 1981 book attempts to make the theory more accessible to experimentalists. Its primary purpose is to demonstrate to experimental molecular and cellular biologists the possible usefulness of mathematical models. Biologists with a basic command of calculus should be able to learn from the book what assumptions are implied by various types of equations, to understand in broad outline a number of major theoretical concepts, and to be aware of some of the difficulties connected with analytical and numerical solutions of mathematical problems. Thus they should be able to appreciate the significance of theoretical papers in their fields and to communicate usefully with theoreticians in the course of their work.




A mathematical modeling framework to simulate and analyze cell type transitions


Book Description

The quantitative understanding of changes in cell types, referred to as cell type transitions, is fundamental to advance fields such as stem cell research, immunology, and cancer therapies. This thesis provides a mathematical modeling framework to simulate and analyze cell type transitions. The novel methodological approaches and models presented here address diverse levels which are essential in this context: Gene regulatory network models represent the cell type-determining gene expression dynamics. Here, a novel construction method for gene regulatory network models is introduced, which allows to transfer results from generic low-dimensional to realistic high-dimensional gene regulatory network models. For populations of cells, a generalized model class is proposed that accounts for multiple cell types, division numbers, and the full label distribution. Analysis and solution methods are presented for this new model class, which cover common cell population experiments and allow to exploit the full information from data. The modeling and analysis methods presented here connect formerly isolated approaches, and thereby contribute to a holistic framework for the quantitative understanding of cell type transitions.




Stochastic Modelling in Process Technology


Book Description

There is an ever increasing need for modelling complex processes reliably. Computational modelling techniques, such as CFD and MD may be used as tools to study specific systems, but their emergence has not decreased the need for generic, analytical process models. Multiphase and multicomponent systems, and high-intensity processes displaying a highly complex behaviour are becoming omnipresent in the processing industry. This book discusses an elegant, but little-known technique for formulating process models in process technology: stochastic process modelling. The technique is based on computing the probability distribution for a single particle's position in the process vessel, and/or the particle's properties, as a function of time, rather than - as is traditionally done - basing the model on the formulation and solution of differential conservation equations. Using this technique can greatly simplify the formulation of a model, and even make modelling possible for processes so complex that the traditional method is impracticable. Stochastic modelling has sporadically been used in various branches of process technology under various names and guises. This book gives, as the first, an overview of this work, and shows how these techniques are similar in nature, and make use of the same basic mathematical tools and techniques. The book also demonstrates how stochastic modelling may be implemented by describing example cases, and shows how a stochastic model may be formulated for a case, which cannot be described by formulating and solving differential balance equations. Introduction to stochastic process modelling as an alternative modelling technique Shows how stochastic modelling may be succesful where the traditional technique fails Overview of stochastic modelling in process technology in the research literature Illustration of the principle by a wide range of practical examples In-depth and self-contained discussions Points the way to both mathematical and technological research in a new, rewarding field




Numerical Time-Dependent Partial Differential Equations for Scientists and Engineers


Book Description

It is the first text that in addition to standard convergence theory treats other necessary ingredients for successful numerical simulations of physical systems encountered by every practitioner. The book is aimed at users with interests ranging from application modeling to numerical analysis and scientific software development. It is strongly influenced by the authors research in in space physics, electrical and optical engineering, applied mathematics, numerical analysis and professional software development. The material is based on a year-long graduate course taught at the University of Arizona since 1989. The book covers the first two-semesters of a three semester series. The second semester is based on a semester-long project, while the third semester requirement consists of a particular methods course in specific disciplines like computational fluid dynamics, finite element method in mechanical engineering, computational physics, biology, chemistry, photonics, etc. The first three chapters focus on basic properties of partial differential equations, including analysis of the dispersion relation, symmetries, particular solutions and instabilities of the PDEs; methods of discretization and convergence theory for initial value problems. The goal is to progress from observations of simple numerical artifacts like diffusion, damping, dispersion, and anisotropies to their analysis and management technique, as it is not always possible to completely eliminate them. In the second part of the book we cover topics for which there are only sporadic theoretical results, while they are an integral part and often the most important part for successful numerical simulation. We adopt a more heuristic and practical approach using numerical methods of investigation and validation. The aim is teach students subtle key issues in order to separate physics from numerics. The following topics are addressed: Implementation of transparent and absorbing boundary conditions; Practical stability analysis in the presence of the boundaries and interfaces; Treatment of problems with different temporal/spatial scales either explicit or implicit; preservation of symmetries and additional constraints; physical regularization of singularities; resolution enhancement using adaptive mesh refinement and moving meshes. Self contained presentation of key issues in successful numerical simulation Accessible to scientists and engineers with diverse background Provides analysis of the dispersion relation, symmetries, particular solutions and instabilities of the partial differential equations




Computational Methods for Modeling of Nonlinear Systems by Anatoli Torokhti and Phil Howlett


Book Description

In this book, we study theoretical and practical aspects of computing methods for mathematical modelling of nonlinear systems. A number of computing techniques are considered, such as methods of operator approximation with any given accuracy; operator interpolation techniques including a non-Lagrange interpolation; methods of system representation subject to constraints associated with concepts of causality, memory and stationarity; methods of system representation with an accuracy that is the best within a given class of models; methods of covariance matrix estimation; methods for low-rank matrix approximations; hybrid methods based on a combination of iterative procedures and best operator approximation; and methods for information compression and filtering under condition that a filter model should satisfy restrictions associated with causality and different types of memory. As a result, the book represents a blend of new methods in general computational analysis, and specific, but also generic, techniques for study of systems theory ant its particular branches, such as optimal filtering and information compression. Best operator approximation Non-Lagrange interpolation Generic Karhunen-Loeve transform Generalised low-rank matrix approximation Optimal data compression Optimal nonlinear filtering




Mathematical Models in Biology


Book Description

This introductory textbook on mathematical biology focuses on discrete models across a variety of biological subdisciplines. Biological topics treated include linear and non-linear models of populations, Markov models of molecular evolution, phylogenetic tree construction, genetics, and infectious disease models. The coverage of models of molecular evolution and phylogenetic tree construction from DNA sequence data is unique among books at this level. Computer investigations with MATLAB are incorporated throughout, in both exercises and more extensive projects, to give readers hands-on experience with the mathematical models developed. MATLAB programs accompany the text. Mathematical tools, such as matrix algebra, eigenvector analysis, and basic probability, are motivated by biological models and given self-contained developments, so that mathematical prerequisites are minimal.




L-System Fractals


Book Description

L-System Fractals covers all the fundamental aspects of generating fractals through L-system. Also it provides insight to various researches in this area for generating fractals through L-system approach & estimating dimensions. Also it discusses various applications of L-system fractals. Fractals generated from L-System including hybrid fractals Dimension calculation for L-system fractals Images and codes for L-system fractals Research directions in the area of L-system fractals Usage of various freely downloadable tools in this area




Dynamical Systems Method for Solving Nonlinear Operator Equations


Book Description

Dynamical Systems Method for Solving Nonlinear Operator Equations is of interest to graduate students in functional analysis, numerical analysis, and ill-posed and inverse problems especially. The book presents a general method for solving operator equations, especially nonlinear and ill-posed. It requires a fairly modest background and is essentially self-contained. All the results are proved in the book, and some of the background material is also included. The results presented are mostly obtained by the author. Contains a systematic development of a novel general method, the dynamical systems method, DSM for solving operator equations, especially nonlinear and ill-posed Self-contained, suitable for wide audience Can be used for various courses for graduate students and partly for undergraduates (especially for RUE classes)




Mathematical Models of Cell-Based Morphogenesis


Book Description

This book describes the shape formation of living organisms using mathematical models. Genes are deeply related to the shape of living organisms, and elucidation of a pathway of shape formation from genes is one of the fundamental problems in biology. Mathematical cell models are indispensable tools to elucidate this problem. The book introduces two mathematical cell models, the cell center model and the vertex model, with their applications. The cell center model is applied to elucidate the formation of neat cell arrangements in epidermis, cell patterns consisting of heterogeneous-sized cells, capillary networks, and the branching patterns of blood vessels. The vertex model is applied to elucidate the wound healing mechanisms of the epithelium and ordered pattern formation involving apoptosis. Pattern formation with differential cell adhesion is also described. The vertex model is then extended from a two-dimensional (2D) to a three-dimensional (3D) model. A cell aggregate involving a large cavity is described to explain the development of the mammalian blastocyst or the formation of an epithelial vesicle. Epithelial tissues and the polarity formation process of the epithelium are also explained. The vertex model also recapitulates active remodeling of tissues and describes the twisting of tissue that contributes to understanding the cardiac loop formation of the embryonic tube. The book showcases that mathematical cell models are indispensable tools to understand the shape formation of living organisms. Successful contribution of the mathematical cell models means that the remodeling of collective cells is self-construction. Examining the successive iterations of self-constructions leads to understanding the remarkable and mysterious morphogenesis that occurs during the development of living organisms. The intended readers of this book are not only theoretical or mathematical biologists, but also experimental and general biologists, including undergraduate and postgraduate students who are interested in the relationship between genes and morphogenesis.