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Network Based Mathematical Modeling In Cell And Developmental Biology
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Book Synopsis Network-based Mathematical Modeling in Cell and Developmental Biology by : Susan Mertins
Download or read book Network-based Mathematical Modeling in Cell and Developmental Biology written by Susan Mertins and published by Frontiers Media SA. This book was released on 2024-08-22 with total page 137 pages. Available in PDF, EPUB and Kindle. Book excerpt: The vast amount of knowledge in Cell Signaling gathered through reductionist efforts and omics technology is poised to approach a Systems Biology understanding of precise representations of cell structure and function and predictions at multi-scale levels despite the complexity. Super-resolution microscopy and single cell analysis are also providing opportunities to explore both spatial and temporal landscapes. Notably, many basic biological processes have been studied capturing mechanistic detail with the goal to understand cellular proliferation and differentiation, gene regulation, morphogenesis, metabolism, and cell-cell communication. Similarly, at the intracellular level, addressing functions such as self-assembly, phase separation, and transport is leading to insights not readily understood as linear pathways. Therefore, network-based mathematical modeling, delineating dynamic biochemical reactions through ordinary and partial differential equations, promises to discover emergent biological properties not heretofore expected.
Book Synopsis Mathematical Modeling in Systems Biology by : Brian P. Ingalls
Download or read book Mathematical Modeling in Systems Biology written by Brian P. Ingalls and published by MIT Press. This book was released on 2022-06-07 with total page 423 pages. Available in PDF, EPUB and Kindle. Book excerpt: An introduction to the mathematical concepts and techniques needed for the construction and analysis of models in molecular systems biology. Systems techniques are integral to current research in molecular cell biology, and system-level investigations are often accompanied by mathematical models. These models serve as working hypotheses: they help us to understand and predict the behavior of complex systems. This book offers an introduction to mathematical concepts and techniques needed for the construction and interpretation of models in molecular systems biology. It is accessible to upper-level undergraduate or graduate students in life science or engineering who have some familiarity with calculus, and will be a useful reference for researchers at all levels. The first four chapters cover the basics of mathematical modeling in molecular systems biology. The last four chapters address specific biological domains, treating modeling of metabolic networks, of signal transduction pathways, of gene regulatory networks, and of electrophysiology and neuronal action potentials. Chapters 3–8 end with optional sections that address more specialized modeling topics. Exercises, solvable with pen-and-paper calculations, appear throughout the text to encourage interaction with the mathematical techniques. More involved end-of-chapter problem sets require computational software. Appendixes provide a review of basic concepts of molecular biology, additional mathematical background material, and tutorials for two computational software packages (XPPAUT and MATLAB) that can be used for model simulation and analysis.
Book Synopsis Mathematical Modeling of Biological Systems, Volume I by : Andreas Deutsch
Download or read book Mathematical Modeling of Biological Systems, Volume I written by Andreas Deutsch and published by Springer Science & Business Media. This book was released on 2007-06-15 with total page 378 pages. Available in PDF, EPUB and Kindle. Book excerpt: Volume I of this two-volume, interdisciplinary work is a unified presentation of a broad range of state-of-the-art topics in the rapidly growing field of mathematical modeling in the biological sciences. The chapters are thematically organized into the following main areas: cellular biophysics, regulatory networks, developmental biology, biomedical applications, data analysis and model validation. The work will be an excellent reference text for a broad audience of researchers, practitioners, and advanced students in this rapidly growing field at the intersection of applied mathematics, experimental biology and medicine, computational biology, biochemistry, computer science, and physics.
Book Synopsis Simple Mathematical Models of Gene Regulatory Dynamics by : Michael C. Mackey
Download or read book Simple Mathematical Models of Gene Regulatory Dynamics written by Michael C. Mackey and published by Springer. This book was released on 2016-11-09 with total page 128 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Book Synopsis Multiscale Modeling of Developmental Systems by :
Download or read book Multiscale Modeling of Developmental Systems written by and published by Academic Press. This book was released on 2007-12-18 with total page 605 pages. Available in PDF, EPUB and Kindle. Book excerpt: Mathematical and computational biology is playing an increasingly important role in the biological sciences. This science brings forward unique challenges, many of which are, at the moment, beyond the theoretical techniques available. Developmental biology, due to its complexity, has lagged somewhat behind its sister disciplines (such as molecular biology and population biology) in making use of quantitative modeling to further biological understanding. This volume comprises work that is among the best developmental modeling available and we feel it will do much to remedy this situation. This book is aimed at all those with an interest in the interdisciplinary field of computer and mathematical modeling of multi-cellular and developmental systems. It is also a goal of the Editors to attract more developmental biologists to consider integrating modeling components into their research. Most importantly, this book is intended to serve as a portal into this research area for younger scientists – especially graduate students and post-docs, from both biological and quantitative backgrounds. * Articles written by leading exponents in the field * Provides techniques to address multiscale modeling * Coverage includes a wide spectrum of modeling approaches * Includes descriptions of the most recent advances in the field
Book Synopsis Mathematical Modeling of Biological Systems, Volume II by : Andreas Deutsch
Download or read book Mathematical Modeling of Biological Systems, Volume II written by Andreas Deutsch and published by Springer Science & Business Media. This book was released on 2007-10-12 with total page 383 pages. Available in PDF, EPUB and Kindle. Book excerpt: Volume II of this two-volume, interdisciplinary work is a unified presentation of a broad range of state-of-the-art topics in the rapidly growing field of mathematical modeling in the biological sciences. Highlighted throughout are mathematical and computational apporaches to examine central problems in the life sciences, ranging from the organization principles of individual cells to the dynamics of large populations. The chapters are thematically organized into the following main areas: epidemiology, evolution and ecology, immunology, neural systems and the brain, and innovative mathematical methods and education. The work will be an excellent reference text for a broad audience of researchers, practitioners, and advanced students in this rapidly growing field at the intersection of applied mathematics, experimental biology and medicine, computational biology, biochemistry, computer science, and physics.
Book Synopsis Mathematical Models in Developmental Biology by : Jerome K. Percus
Download or read book Mathematical Models in Developmental Biology written by Jerome K. Percus and published by American Mathematical Soc.. This book was released on 2015-06-19 with total page 265 pages. Available in PDF, EPUB and Kindle. Book excerpt: The path from relatively unstructured egg to full organism is one of the most fascinating trajectories in the biological sciences. Its complexity calls for a very high level of organization, with an array of subprocesses in constant communication with each other. These notes introduce an interleaved set of mathematical models representative of research in the last few decades, as well as the techniques that have been developed for their solution. Such models offer an effective way of incorporating reliable data in a concise form, provide an approach complementary to the techniques of molecular biology, and help to inform and direct future research. Titles in this series are co-published with the Courant Institute of Mathematical Sciences at New York University.
Book Synopsis Mathematical Models in Biology by : Valeria Zazzu
Download or read book Mathematical Models in Biology written by Valeria Zazzu and published by Springer. This book was released on 2015-11-26 with total page 207 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents an exciting collection of contributions based on the workshop “Bringing Maths to Life” held October 27-29, 2014 in Naples, Italy. The state-of-the art research in biology and the statistical and analytical challenges facing huge masses of data collection are treated in this Work. Specific topics explored in depth surround the sessions and special invited sessions of the workshop and include genetic variability via differential expression, molecular dynamics and modeling, complex biological systems viewed from quantitative models, and microscopy images processing, to name several. In depth discussions of the mathematical analysis required to extract insights from complex bodies of biological datasets, to aid development in the field novel algorithms, methods and software tools for genetic variability, molecular dynamics, and complex biological systems are presented in this book. Researchers and graduate students in biology, life science, and mathematics/statistics will find the content useful as it addresses existing challenges in identifying the gaps between mathematical modeling and biological research. The shared solutions will aid and promote further collaboration between life sciences and mathematics.
Book Synopsis Mathematical Models of the Cell and Cell Associated Objects by : Viktor Vladimirovich Ivanov
Download or read book Mathematical Models of the Cell and Cell Associated Objects written by Viktor Vladimirovich Ivanov and published by Elsevier Science Limited. This book was released on 2006 with total page 333 pages. Available in PDF, EPUB and Kindle. Book excerpt: The book contains five main parts: Introduction: Evolutionary System and Development Modelling; Part I: A Survey of MM of CAO (cell associated objects); Part II: MM (mathematical models) of Development; Part III: Introduction to Applications; Appendix: Mathematics of Development. The part I gives the reader a survey of hundreds results in the field of the cell and cell associated objects modelling, which are not easy accessible. The original four parts of the book have no analogy in the literature, except the previous book of the first author 'Model Development and Optimization', KAP, 1999, and the book 'Mathematical Modeling in Economics, Ecology and the Environment', KAP, 1999, by N. Hritonenko, Yu. Yatsenko (Yu. Yatsenko is a pupil of the first author of the cell book). The present book is different from the previous mainly by much more profound investigation of such a complicated object as the cell and by much more detailed description of applications to modelling AIDS, cancers, and life longevity. Key features: - Inlet novel class of non-linear mathematical models based on the general theory of evolutionary systems and their development . - Introducing and proving fundamental properties of evolutionary systems on optimal distribution of their various resources on their internal and external functions. - Proof of effective applicability of that class of models to complicated objects such as the cell and the immune network . - Detailed modelling complicated processes such as the cell cycle, protein folding, immune network response, etc. - Detailed analysis of applications to modelling 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 modelling of the cell and cell associated objects. Key features: - Inlet novel class of non-linear mathematical models based on the general theory of evolutionary systems and their development . - Introducing and proving fundamental properties of evolutionary systems on optimal distribution of their various resources on their internal and external functions. - Proof of effective applicability of that class of models to complicated objects such as the cell and the immune network . - Detailed modelling complicated processes such as the cell cycle, protein folding, immune network response, etc. - Detailed analysis of applications to modelling 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 modelling of the cell and cell associated objects.
Book Synopsis Mathematical Modeling of Biological Systems, Volume II by : Andreas Deutsch
Download or read book Mathematical Modeling of Biological Systems, Volume II written by Andreas Deutsch and published by Birkhäuser. This book was released on 2007-10-12 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Volume II of this two-volume, interdisciplinary work is a unified presentation of a broad range of state-of-the-art topics in the rapidly growing field of mathematical modeling in the biological sciences. Highlighted throughout are mathematical and computational apporaches to examine central problems in the life sciences, ranging from the organization principles of individual cells to the dynamics of large populations. The chapters are thematically organized into the following main areas: epidemiology, evolution and ecology, immunology, neural systems and the brain, and innovative mathematical methods and education. The work will be an excellent reference text for a broad audience of researchers, practitioners, and advanced students in this rapidly growing field at the intersection of applied mathematics, experimental biology and medicine, computational biology, biochemistry, computer science, and physics.
Book Synopsis Dynamics of Mathematical Models in Biology by : Alessandra Rogato
Download or read book Dynamics of Mathematical Models in Biology written by Alessandra Rogato and published by Springer. This book was released on 2016-11-03 with total page 154 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume focuses on contributions from both the mathematics and life science community surrounding the concepts of time and dynamicity of nature, two significant elements which are often overlooked in modeling process to avoid exponential computations. The book is divided into three distinct parts: dynamics of genomes and genetic variation, dynamics of motifs, and dynamics of biological networks. Chapters included in dynamics of genomes and genetic variation analyze the molecular mechanisms and evolutionary processes that shape the structure and function of genomes and those that govern genome dynamics. The dynamics of motifs portion of the volume provides an overview of current methods for motif searching in DNA, RNA and proteins, a key process to discover emergent properties of cells, tissues, and organisms. The part devoted to the dynamics of biological networks covers networks aptly discusses networks in complex biological functions and activities that interpret processes in cells. Moreover, chapters in this section examine several mathematical models and algorithms available for integration, analysis, and characterization. Once life scientists began to produce experimental data at an unprecedented pace, it become clear that mathematical models were necessary to interpret data, to structure information with the aim to unveil biological mechanisms, discover results, and make predictions. The second annual “Bringing Maths to Life” workshop held in Naples, Italy October 2015, enabled a bi-directional flow of ideas from and international group of mathematicians and biologists. The venue allowed mathematicians to introduce novel algorithms, methods, and software that may be useful to model aspects of life science, and life scientists posed new challenges for mathematicians.
Book Synopsis Computational and Mathematical Models in Biology by : Carla M.A. Pinto
Download or read book Computational and Mathematical Models in Biology written by Carla M.A. Pinto and published by Springer Nature. This book was released on 2024-01-09 with total page 331 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides the most valuable and updated research on computational and mathematical models in biological systems from influential researchers around the world and contributes to the development of future research guidelines in this topic. Topics include (but are not limited to): modeling infectious and dynamic diseases; regulation of cell function; biological pattern formation; biological networks; tumor growth and angiogenesis; complex biological systems; Monte Carlo methods; Control theory, optimization and their applications
Book Synopsis Mathematical Models of Cell-Based Morphogenesis by : Hisao Honda
Download or read book Mathematical Models of Cell-Based Morphogenesis written by Hisao Honda and published by Springer Nature. This book was released on 2022-06-27 with total page 195 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Book Synopsis Computational Modeling of Signaling Networks by : Lan K. Nguyen
Download or read book Computational Modeling of Signaling Networks written by Lan K. Nguyen and published by Springer Nature. This book was released on 2023-04-19 with total page 387 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume focuses on the computational modeling of cell signaling networks and the application of these models and model-based analysis to systems and personalized medicine. Chapters guide readers through various modeling approaches for signaling networks, new methods and techniques that facilitate model development and analysis, and new applications of signaling network modeling towards systems and personalized treatment of cancer. Written in the format of the highly successful Methods in Molecular Biology series, each chapter includes an introduction to the topic, lists necessary materials and methods, includes tips on troubleshooting and known pitfalls, and step-by-step, readily reproducible protocols. Authoritative and cutting-edge, Computational Modeling of Signaling Networks aims to benefit a wide spectrum of readers including researchers from the biological as well as computational systems biology communities.
Book Synopsis Pattern Formation in Morphogenesis by : Vincenzo Capasso
Download or read book Pattern Formation in Morphogenesis written by Vincenzo Capasso and published by Springer Science & Business Media. This book was released on 2012-10-03 with total page 283 pages. Available in PDF, EPUB and Kindle. Book excerpt: Pattern Formation in Morphogenesis is a rich source of interesting and challenging mathematical problems. The volume aims at showing how a combination of new discoveries in developmental biology and associated modelling and computational techniques has stimulated or may stimulate relevant advances in the field. Finally it aims at facilitating the process of unfolding a mutual recognition between Biologists and Mathematicians of their complementary skills, to the point where the resulting synergy generates new and novel discoveries. It offers an interdisciplinary interaction space between biologists from embryology, genetics and molecular biology who present their own work in the perspective of the advancement of their specific fields, and mathematicians who propose solutions based on the knowledge grasped from biologists.
Book Synopsis Cell Movement by : Magdalena Stolarska
Download or read book Cell Movement written by Magdalena Stolarska and published by Springer. This book was released on 2018-11-22 with total page 301 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book contains a collection of original research articles and review articles that describe novel mathematical modeling techniques and the application of those techniques to models of cell motility in a variety of contexts. The aim is to highlight some of the recent mathematical work geared at understanding the coordination of intracellular processes involved in the movement of cells. This collection will benefit researchers interested in cell motility as well graduate students taking a topics course in this area.
Book Synopsis An Introduction to the Mathematics of Neurons by : F. C. Hoppensteadt
Download or read book An Introduction to the Mathematics of Neurons written by F. C. Hoppensteadt and published by Cambridge University Press. This book was released on 1997-06-28 with total page 236 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book describes the signal processing aspects of neural networks. It begins with a presentation of the necessary background material in electronic circuits, mathematical modeling and analysis, signal processing, and neurosciences, and then proceeds to applications. These applications include small networks of neurons, such as those used in control of warm-up and flight in moths and control of respiration during exercise in humans. Next, a theory of mnemonic surfaces is developed and studied and material on pattern formation and cellular automata is presented. Finally, large networks are studied, such as the thalamus-reticular complex circuit, believed to be involved in focusing attention, and the development of connections in the visual cortex. Additional material is also provided about nonlinear wave propagation in networks. This book will serve as an excellent text for advanced undergraduates and graduates in the physical sciences, mathematics, engineering, medicine and life sciences.
