Simple Mathematical Models Of Gene Regulatory Dynamics

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Simple Mathematical Models Of Gene Regulatory Dynamics

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Author : Michael C. Mackey
language : en
Publisher: Springer
Release Date : 2016-11-09

Simple Mathematical Models Of Gene Regulatory Dynamics written by Michael C. Mackey and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2016-11-09 with Medical categories.

This is a short and self-contained introduction to the field of mathematical modeling of gene-networks in bacteria. As an entry point to the field, we focus on the analysis of simple gene-network dynamics. The notes commence with an introduction to the deterministic modeling of gene-networks, with extensive reference to applicable results coming from dynamical systems theory. The second part of the notes treats extensively several approaches to the study of gene-network dynamics in the presence of noise—either arising from low numbers of molecules involved, or due to noise external to the regulatory process. The third and final part of the notes gives a detailed treatment of three well studied and concrete examples of gene-network dynamics by considering the lactose operon, the tryptophan operon, and the lysis-lysogeny switch. The notes contain an index for easy location of particular topics as well as an extensive bibliography of the current literature. The target audience of these notes are mainly graduates students and young researchers with a solid mathematical background (calculus, ordinary differential equations, and probability theory at a minimum), as well as with basic notions of biochemistry, cell biology, and molecular biology. They are meant to serve as a readable and brief entry point into a field that is currently highly active, and will allow the reader to grasp the current state of research and so prepare them for defining and tackling new research problems.

Probabilistic Boolean Networks

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Author : Ilya Shmulevich
language : en
Publisher: SIAM
Release Date : 2010-01-01

Probabilistic Boolean Networks written by Ilya Shmulevich and has been published by SIAM this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-01-01 with Mathematics categories.

This is the first comprehensive treatment of probabilistic Boolean networks (PBNs), an important model class for studying genetic regulatory networks. This book covers basic model properties, including the relationships between network structure and dynamics, steady-state analysis, and relationships to other model classes." "Researchers in mathematics, computer science, and engineering are exposed to important applications in systems biology and presented with ample opportunities for developing new approaches and methods. The book is also appropriate for advanced undergraduates, graduate students, and scientists working in the fields of computational biology, genomic signal processing, control and systems theory, and computer science.

Computational Modeling Of Gene Regulatory Networks

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Author : Hamid Bolouri
language : en
Publisher: Imperial College Press
Release Date : 2008

Computational Modeling Of Gene Regulatory Networks written by Hamid Bolouri and has been published by Imperial College Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008 with Medical categories.

This book serves as an introduction to the myriad computational approaches to gene regulatory modeling and analysis, and is written specifically with experimental biologists in mind. Mathematical jargon is avoided and explanations are given in intuitive terms. In cases where equations are unavoidable, they are derived from first principles or, at the very least, an intuitive description is provided. Extensive examples and a large number of model descriptions are provided for use in both classroom exercises as well as self-guided exploration and learning. As such, the book is ideal for self-learning and also as the basis of a semester-long course for undergraduate and graduate students in molecular biology, bioengineering, genome sciences, or systems biology.

Systems Biology

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Author : Jinzhi Lei
language : en
Publisher: Springer Nature
Release Date : 2021-05-13

Systems Biology written by Jinzhi Lei and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2021-05-13 with Mathematics categories.

This book discusses the mathematical simulation of biological systems, with a focus on the modeling of gene expression, gene regulatory networks and stem cell regeneration. The diffusion of morphogens is addressed by introducing various reaction-diffusion equations based on different hypotheses concerning the process of morphogen gradient formation. The robustness of steady-state gradients is also covered through boundary value problems. The introduction gives an overview of the relevant biological concepts (cells, DNA, organism development) and provides the requisite mathematical preliminaries on continuous dynamics and stochastic modeling. A basic understanding of calculus is assumed. The techniques described in this book encompass a wide range of mechanisms, from molecular behavior to population dynamics, and the inclusion of recent developments in the literature together with first-hand results make it an ideal reference for both new students and experienced researchers in the field of systems biology and applied mathematics.

Piecewise Deterministic Processes In Biological Models

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Author : Ryszard Rudnicki
language : en
Publisher: Springer
Release Date : 2017-07-20

Piecewise Deterministic Processes In Biological Models written by Ryszard Rudnicki and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-07-20 with Mathematics categories.

This book presents a concise introduction to piecewise deterministic Markov processes (PDMPs), with particular emphasis on their applications to biological models. Further, it presents examples of biological phenomena, such as gene activity and population growth, where different types of PDMPs appear: continuous time Markov chains, deterministic processes with jumps, processes with switching dynamics, and point processes. Subsequent chapters present the necessary tools from the theory of stochastic processes and semigroups of linear operators, as well as theoretical results concerning the long-time behaviour of stochastic semigroups induced by PDMPs and their applications to biological models. As such, the book offers a valuable resource for mathematicians and biologists alike. The first group will find new biological models that lead to interesting and often new mathematical questions, while the second can observe how to include seemingly disparate biological proc esses into a unified mathematical theory, and to arrive at revealing biological conclusions. The target audience primarily comprises of researchers in these two fields, but the book will also benefit graduate students.

Mathematical Modelling Computing In Biology And Medicine

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Author : V. Capasso (Ed)
language : en
Publisher: Società Editrice Esculapio
Release Date : 2003

Mathematical Modelling Computing In Biology And Medicine written by V. Capasso (Ed) and has been published by Società Editrice Esculapio this book supported file pdf, txt, epub, kindle and other format this book has been release on 2003 with Mathematics categories.

Trends In Biomathematics Modeling Epidemiological Neuronal And Social Dynamics

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Author : Rubem P. Mondaini
language : en
Publisher: Springer Nature
Release Date : 2023-07-24

Trends In Biomathematics Modeling Epidemiological Neuronal And Social Dynamics written by Rubem P. Mondaini and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-07-24 with Mathematics categories.

This volume gathers together selected peer-reviewed works presented at the BIOMAT 2022 International Symposium, which was virtually held on November 7-11, 2022, with an organization staff based in Rio de Janeiro, Brazil. Topics touched on in this volume include infection spread in a population described by an agent-based approach; the study of gene essentiality via network-based computational modeling; stochastic models of neuronal dynamics; and the modeling of a statistical distribution of amino acids in protein domain families. The reader will also find texts in epidemic models with dynamic social distancing; with no vertical transmission; and with general incidence rates. Aspects of COVID-19 dynamics: the use of an SEIR model to analyze its spread in Brazil; the age-dependent manner of modeling its spread pattern; the impact of media awareness programs; and a web-based computational tool for Non-invasive hemodynamics evaluation of coronary stenosis are also covered. Held every year since 2001, The BIOMAT International Symposium gathers together, in a single conference, researchers from Mathematics, Physics, Biology, and affine fields to promote the interdisciplinary exchange of results, ideas and techniques, promoting truly international cooperation for problem discussion. BIOMAT volumes published from 2017 to 2021 are also available by Springer.

Handbook Of Research On Computational Methodologies In Gene Regulatory Networks

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Author : Das, Sanjoy
language : en
Publisher: IGI Global
Release Date : 2009-10-31

Handbook Of Research On Computational Methodologies In Gene Regulatory Networks written by Das, Sanjoy and has been published by IGI Global this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-10-31 with Computers categories.

"This book focuses on methods widely used in modeling gene networks including structure discovery, learning, and optimization"--Provided by publisher.

Boolean Networks As Predictive Models Of Emergent Biological Behaviors

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Author : Jordan C. Rozum
language : en
Publisher: Cambridge University Press
Release Date : 2024-03-28

Boolean Networks As Predictive Models Of Emergent Biological Behaviors written by Jordan C. Rozum 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 2024-03-28 with Science categories.

Interacting biological systems at all organizational levels display emergent behavior. Modeling these systems is made challenging by the number and variety of biological components and interactions – from molecules in gene regulatory networks to species in ecological networks – and the often-incomplete state of system knowledge, such as the unknown values of kinetic parameters for biochemical reactions. Boolean networks have emerged as a powerful tool for modeling these systems. This Element provides a methodological overview of Boolean network models of biological systems. After a brief introduction, the authors describe the process of building, analyzing, and validating a Boolean model. They then present the use of the model to make predictions about the system's response to perturbations and about how to control its behavior. The Element emphasizes the interplay between structural and dynamical properties of Boolean networks and illustrates them in three case studies from disparate levels of biological organization.

The Princeton Guide To Evolution

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Author : David A. Baum
language : en
Publisher: Princeton University Press
Release Date : 2017-03-21

The Princeton Guide To Evolution written by David A. Baum and has been published by Princeton University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-03-21 with Science categories.

The essential one-volume reference to evolution The Princeton Guide to Evolution is a comprehensive, concise, and authoritative reference to the major subjects and key concepts in evolutionary biology, from genes to mass extinctions. Edited by a distinguished team of evolutionary biologists, with contributions from leading researchers, the guide contains some 100 clear, accurate, and up-to-date articles on the most important topics in seven major areas: phylogenetics and the history of life; selection and adaptation; evolutionary processes; genes, genomes, and phenotypes; speciation and macroevolution; evolution of behavior, society, and humans; and evolution and modern society. Complete with more than 100 illustrations (including eight pages in color), glossaries of key terms, suggestions for further reading on each topic, and an index, this is an essential volume for undergraduate and graduate students, scientists in related fields, and anyone else with a serious interest in evolution. Explains key topics in some 100 concise and authoritative articles written by a team of leading evolutionary biologists Contains more than 100 illustrations, including eight pages in color Each article includes an outline, glossary, bibliography, and cross-references Covers phylogenetics and the history of life; selection and adaptation; evolutionary processes; genes, genomes, and phenotypes; speciation and macroevolution; evolution of behavior, society, and humans; and evolution and modern society