Application Of Network Theoretic Approaches In Biology
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Application Of Network Theoretic Approaches In Biology
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Author : Rinku Sharma
language : en
Publisher: Frontiers Media SA
Release Date : 2023-08-25
Application Of Network Theoretic Approaches In Biology written by Rinku Sharma and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-08-25 with Science categories.
The biological complexity essentially includes and involves processes that are mediated through explicitly non-linear interactions that are often typically entangled in nature. These comprise a myriad of interactions among a vast number of entities such as genes, proteins, metabolites, and species, widely varying in scale. These interactions render biological systems across spatial and temporal scales as complex adaptive systems having features like: self-organisation, modularity, emergence, non-linear interactions, collective response and adaptation. The theory of complex networks offers an appropriate formal framework for modelling such complex systems. The enormous wealth of biological data generated by high-throughput techniques, as also through empirical investigations can be analysed using the aforementioned formal framework to obtain important insights into biological complexity.The concept of networks can be used:1) to explore the relationships between entities resulting in network generation; 2) to guide the analytic procedure based on existing network(s) as prior knowledge; and 3) to analyze the prior network(s) regarding their topology and attributes. Complex networks, being ubiquitous, permeate the biological systems across spatial and temporal scales. The objective of this collection is to highlight some very salient features of such inherent complexity in biological systems by adopting a network theoretic perspective. The anticipated pay-off is obtaining a deeper insight explicitly into the systems-level interactions and the emergent complex behaviour of the systems. Also, investigating the propulsive forces which lend various networks with akin topological characteristics that would help to merge vivid information related to various molecular interactions into a single framework, thereby permitting a structural perspective of the cellular dynamics.The application may include – exploring the disease/environmental stress response and trait mechanism using different omics platforms, candidate gene discovery and validation, network-guided discovery and deployment of omics approaches in biology; modern genetic improvement methods for delivering genes in addition to high throughput and precise phenotyping methodologies, exploring the disease/environmental stress response mechanism, marker re-prioritization, network-guided biomarker discovery etc.
Foundations Of Theoretical Approaches In Systems Biology
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Author : Alberto Marin-Sanguino
language : en
Publisher: Frontiers Media SA
Release Date : 2019-01-11
Foundations Of Theoretical Approaches In Systems Biology written by Alberto Marin-Sanguino and has been published by Frontiers Media SA this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-01-11 with categories.
If biology in the 20th century was characterized by an explosion of new technologies and experimental methods, that of the 21st has seen an equally exuberant proliferation of mathematical and computational methods that attempt to systematize and explain the abundance of available data. As we live through the consolidation of a new paradigm where experimental data goes hand in hand with computational analysis, we contemplate the challenge of fusing these two aspects of the new biology into a consistent theoretical framework. Whether systems biology will survive as a field or be washed away by the tides of future fads will ultimately depend on its success to achieve this type of synthesis. The famous quote attributed to Kurt Lewin comes to mind: "there is nothing more practical than a good theory". This book presents a wide assortment of articles on systems biology in an attempt to capture the variety of current methods in systems biology and show how they can help to find answers to the challenges of modern biology.
Computational Methods In Systems Biology
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Author : Monika Heiner
language : en
Publisher: Springer
Release Date : 2008-10-05
Computational Methods In Systems Biology written by Monika Heiner and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2008-10-05 with Science categories.
This book constitutes the refereed proceedings of the 6th International Conference on Computational Methods in Systems Biology, CMSB 2008, held in Rostock, Germany, in September 2008. The 21 revised full papers presented together with the summaries of 5 invited papers were carefully reviewed and selected from more than 60 submissions. The papers cover theoretical or applied contributions that are motivated by a biological question focusing on modeling approaches, including process algebra, simulation approaches, analysis methods, in particular model checking and flux analysis, and case studies.
Game Theory
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Author : Quiming Huang
language : en
Publisher: BoD – Books on Demand
Release Date : 2010-09-27
Game Theory written by Quiming Huang and has been published by BoD – Books on Demand this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-09-27 with Computers categories.
Game theory provides a powerful mathematical framework that can accommodate the preferences and requirements of various stakeholders in a given process as regards the outcome of the process. The chapters' contents in this book will give an impetus to the application of game theory to the modeling and analysis of modern communication, biology engineering, transportation, etc...
A Systems Theoretic Approach To Systems And Synthetic Biology Ii Analysis And Design Of Cellular Systems
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Author : Vishwesh V. Kulkarni
language : en
Publisher: Springer
Release Date : 2014-07-03
A Systems Theoretic Approach To Systems And Synthetic Biology Ii Analysis And Design Of Cellular Systems written by Vishwesh V. Kulkarni and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-07-03 with Medical categories.
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 II contains chapters contributed by leading researchers in the field of systems and synthetic biology that concern modeling physiological processes and bottom-up constructions of scalable biological systems. The modeling problems include characterisation and synthesis of memory, understanding how homoeostasis is maintained in the face of shocks and relatively gradual perturbations, understanding the functioning and robustness of biological clocks such as those at the core of circadian rhythms, and understanding how the cell cycles can be regulated, among others. Some of the bottom-up construction problems investigated in Volume II are as follows: How should biomacromolecules, platforms, and scalable architectures be chosen and synthesised in order to build programmable de novo biological systems? What are the types of constrained optimisation problems encountered in this process and how can these be solved efficiently? 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.
Theoretical Physics For Biological Systems
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Author : Paola Lecca
language : en
Publisher: CRC Press
Release Date : 2019-01-30
Theoretical Physics For Biological Systems written by Paola Lecca and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2019-01-30 with Medical categories.
Quantum physics provides the concepts and their mathematical formalization that lend themselves to describe important properties of biological networks topology, such as vulnerability to external stress and their dynamic response to changing physiological conditions. A theory of networks enhanced with mathematical concepts and tools of quantum physics opens a new area of biological physics, the one of systems biological physics.
Game Theory And Networks
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Author : Surajit Borkotokey
language : en
Publisher: Springer Nature
Release Date : 2022-01-01
Game Theory And Networks written by Surajit Borkotokey and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-01-01 with Mathematics categories.
This book is a collection of selected papers presented at the consecutively held international conferences on “Game Theory and Networks”, organized by the Department of Mathematics, Dibrugarh University, India, in collaboration with the Economics Department of Queen’s University, Belfast, UK, during September 6–9, 2019 and September, 13–15 2018. The book includes chapters on network measures and network formation, application of network theory to contagion, biological data and finance and macroeconomics as expository articles. The book also contains chapters on fair allocation in the context of queuing, rationing and cooperative games with transferable utilities for engaged researchers. A few survey chapters on non-cooperative game theory, evolutionary game theory, mechanism design and social choice theory are also incorporated to cater to the needs of the beginners in the field. This book discusses the use of game theoretic tools and network models across disciplines: mathematics, statistics, economics, computer science, political science, sociology and psychology. It aims at providing a suitable learning experience to beginners on the basics of cooperative games, networks and mechanism design, as well as recent developments to research scholars having the basic knowledge of these topics.
Computational Methods In Systems Biology
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Author : Muffy Calder
language : en
Publisher: Springer Science & Business Media
Release Date : 2007-09-05
Computational Methods In Systems Biology written by Muffy Calder and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2007-09-05 with Computers categories.
This book constitutes the refereed proceedings of the International Conference on Computational Methods in Systems Biology, CMSB 2007, held in Edinburgh, Scotland, September 2007. The 16 revised full papers presented present a variety of techniques from computer science, such as language design, concurrency theory, software engineering, and formal methods, for biologists, physicists, and mathematicians interested in the systems-level understanding of cellular processes.
A Systems Theoretic Approach To Systems And Synthetic Biology I Models And System Characterizations
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Author : Vishwesh V. Kulkarni
language : en
Publisher: Springer
Release Date : 2014-07-03
A Systems Theoretic Approach To Systems And Synthetic Biology I Models And System Characterizations written by Vishwesh V. Kulkarni and has been published by Springer this book supported file pdf, txt, epub, kindle and other format this book has been release on 2014-07-03 with Medical categories.
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.
Biological Neural Networks Hierarchical Concept Of Brain Function
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Author : Konstantin V. Baev
language : en
Publisher: Springer Science & Business Media
Release Date : 2012-12-06
Biological Neural Networks Hierarchical Concept Of Brain Function written by Konstantin V. Baev and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012-12-06 with Science categories.
This book is devoted to a novel conceptual theoretical framework of neuro science and is an attempt to show that we can postulate a very small number of assumptions and utilize their heuristics to explain a very large spectrum of brain phenomena. The major assumption made in this book is that inborn and acquired neural automatisms are generated according to the same func tional principles. Accordingly, the principles that have been revealed experi mentally to govern inborn motor automatisms, such as locomotion and scratching, are used to elucidate the nature of acquired or learned automat isms. This approach allowed me to apply the language of control theory to describe functions of biological neural networks. You, the reader, can judge the logic of the conclusions regarding brain phenomena that the book derives from these assumptions. If you find the argument flawless, one can call it common sense and consider that to be the best praise for a chain of logical conclusions. For the sake of clarity, I have attempted to make this monograph as readable as possible. Special attention has been given to describing some of the concepts of optimal control theory in such a way that it will be under standable to a biologist or physician. I have also included plenty of illustra tive examples and references designed to demonstrate the appropriateness and applicability of these conceptual theoretical notions for the neurosciences.