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Networked systems are all around us. The accumulated evidence of systems as complex as a cell cannot be fully understood by studying only their isolated constituents, giving rise to a new area of interest in research OCo the study of complex networks . In a broad sense, biological networks have been one of the most studied networks, and the field has benefited from many important contributions. By understanding and modeling the structure of a biological network, a better perception of its dynamical and functional behavior is to be expected. This unique book compiles the most relevant results and novel insights provided by network theory in the biological sciences, ranging from the structure and dynamics of the brain to cellular and protein networks and to population-level biology. Sample Chapter(s). Chapter 1: Introduction (61 KB). Contents: Networks at the Cellular Level: The Structural Network Properties of Biological Systems (M Brilli & P Li); Dynamics of Multicellular Synthetic Gene Networks (E Ullner et al.); Boolean Networks in Inference and Dynamic Modeling of Biological Systems at the Molecular and Physiological Level (J Thakar & R Albert); Complexity of Boolean Dynamics in Simple Models of Signaling Networks and in Real Genetic Networks (A D az-Guilera & R ulvarez-Buylla); Geometry and Topology of Folding Landscapes (L Bongini & L Casetti); Elastic Network Models for Biomolecular Dynamics: Theory and Application to Membrane Proteins and Viruses (T R Lezon et al.); Metabolic Networks (M C Palumbo et al.); Brain Networks: The Human Brain Network (O Sporns); Brain Network Analysis from High-Resolution EEG Signals (F De Vico Fallani & F Babiloni); An Optimization Approach to the Structure of the Neuronal layout of C elegans (A Arenas et al.); Cultured Neuronal Networks Express Complex Patterns of Activity and Morphological Memory (N Raichman et al.); Synchrony and Precise Timing in Complex Neural Networks (R-M Memmesheimer & M Timme); Networks at the Individual and Population Levels: Ideas for Moving Beyond Structure to Dynamics of Ecological Networks (D B Stouffer et al.); Evolutionary Models for Simple Biosystems (F Bagnoli); Evolution of Cooperation in Adaptive Social Networks (S Van Segbroeck et al.); From Animal Collectives and Complex Networks to Decentralized Motion Control Strategies (A Buscarino et al.); Interplay of Network State and Topology in Epidemic Dynamics (T Gross). Readership: Advanced undergraduates, graduate students and researchers interested in the study of complex networks in a wide range of biological processes and systems."
This volume presents a timely and comprehensive overview of biological networks at all organization levels in the spirit of the complex system approach. It discusses the transversal issues and fundamental principles as well as the overall structure, dynamics, and modeling of a wide array of biological networks at the molecular, cellular, and population levels. Anchored in both empirical data and a strong theoretical background, the book therefore lends valuable credence to the complex systems approach.
Complex interacting networks are observed in systems from such diverse areas as physics, biology, economics, ecology, and computer science. For example, economic or social interactions often organize themselves in complex network structures. Similar phenomena are observed in traffic flow and in communication networks as the internet. In current problems of the Biosciences, prominent examples are protein networks in the living cell, as well as molecular networks in the genome. On larger scales one finds networks of cells as in neural networks, up to the scale of organisms in ecological food webs. This book defines the field of complex interacting networks in its infancy and presents the dynamics of networks and their structure as a key concept across disciplines. The contributions present common underlying principles of network dynamics and their theoretical description and are of interest to specialists as well as to the non-specialized reader looking for an introduction to this new exciting field. Theoretical concepts include modeling networks as dynamical systems with numerical methods and new graph theoretical methods, but also focus on networks that change their topology as in morphogenesis and self-organization. The authors offer concepts to model network structures and dynamics, focussing on approaches applicable across disciplines.
This second edition presents the enormous progress made in recent years in the many subfields related to the two great questions : how does the brain work? and, How can we build intelligent machines? This second edition greatly increases the coverage of models of fundamental neurobiology, cognitive neuroscience, and neural network approaches to language. (Midwest).
This book provides an entry point into Systems Biology for researchers in genetics, molecular biology, cell biology, microbiology and biomedical science to understand the key concepts to expanding their work. Chapters organized around broader themes of Organelles and Organisms, Systems Properties of Biological Processes, Cellular Networks, and Systems Biology and Disease discuss the development of concepts, the current applications, and the future prospects. Emphasis is placed on concepts and insights into the multi-disciplinary nature of the field as well as the importance of systems biology in human biological research. Technology, being an extremely important aspect of scientific progress overall, and in the creation of new fields in particular, is discussed in 'boxes' within each chapter to relate to appropriate topics. - 2013 Honorable Mention for Single Volume Reference in Science from the Association of American Publishers' PROSE Awards - Emphasizes the interdisciplinary nature of systems biology with contributions from leaders in a variety of disciplines - Includes the latest research developments in human and animal models to assist with translational research - Presents biological and computational aspects of the science side-by-side to facilitate collaboration between computational and biological researchers
Biological Network Analysis: Trends, Approaches, Graph Theory, and Algorithms considers three major biological networks, including Gene Regulatory Networks (GRN), Protein-Protein Interaction Networks (PPIN), and Human Brain Connectomes. The book's authors discuss various graph theoretic and data analytics approaches used to analyze these networks with respect to available tools, technologies, standards, algorithms and databases for generating, representing and analyzing graphical data. As a wide variety of algorithms have been developed to analyze and compare networks, this book is a timely resource.
Get an In-Depth Understanding of Graph Drawing Techniques, Algorithms, Software, and Applications The Handbook of Graph Drawing and Visualization provides a broad, up-to-date survey of the field of graph drawing. It covers topological and geometric foundations, algorithms, software systems, and visualization applications in business, education, science, and engineering. Each chapter is self-contained and includes extensive references. The first several chapters of the book deal with fundamental topological and geometric concepts and techniques used in graph drawing, such as planarity testing and embedding, crossings and planarization, symmetric drawings, and proximity drawings. The following chapters present a large collection of algorithms for constructing drawings of graphs, including tree, planar straight-line, planar orthogonal and polyline, spine and radial, circular, rectangular, hierarchical, and three-dimensional drawings as well as labeling algorithms, simultaneous embeddings, and force-directed methods. The book then introduces the GraphML language for representing graphs and their drawings and describes three software systems for constructing drawings of graphs: OGDF, GDToolkit, and PIGALE. The final chapters illustrate the use of graph drawing methods in visualization applications for biological networks, computer security, data analytics, education, computer networks, and social networks. Edited by a pioneer in graph drawing and with contributions from leaders in the graph drawing research community, this handbook shows how graph drawing and visualization can be applied in the physical, life, and social sciences. Whether you are a mathematics researcher, IT practitioner, or software developer, the book will help you understand graph drawing methods and graph visualization systems, use graph drawing techniques in your research, and incorporate graph drawing solutions in your products.
The Handbook of the Biology of Aging, Sixth Edition, provides a comprehensive overview of the latest research findings in the biology of aging. Intended as a summary for researchers, it is also adopted as a high level textbook for graduate and upper level undergraduate courses. The Sixth Edition is 20% larger than the Fifth Edition, with 21 chapters summarizing the latest findings in research on the biology of aging. The content of the work is virtually 100% new. Though a selected few topics are similar to the Fifth Edition, these chapters are authored by new contributors with new information. The majority of the chapters are completely new in both content and authorship. The Sixth Edition places greater emphasis and coverage on competing and complementary theories of aging, broadening the discussion of conceptual issues. Greater coverage of techniques used to study biological issues of aging include computer modeling, gene profiling, and demographic analyses. Coverage of research on Drosophilia is expanded from one chapter to four. New chapters on mammalian models discuss aging in relation to skeletal muscles, body fat and carbohydrate metabolism, growth hormone, and the human female reproductive system. Additional new chapters summarize exciting research on stem cells and cancer, dietary restriction, and whether age related diseases are an integral part of aging. The Handbook of the Biology of Aging, Sixth Edition is part of the Handbooks on Aging series, including Handbook of the Psychology of Aging and Handbook of Aging and the Social Sciences, also in their 6th editions.
"This book focuses on methods widely used in modeling gene networks including structure discovery, learning, and optimization"--Provided by publisher.
An introduction to biological networks and methods for their analysis Analysis of Biological Networks is the first book of its kind to provide readers with a comprehensive introduction to the structural analysis of biological networks at the interface of biology and computer science. The book begins with a brief overview of biological networks and graph theory/graph algorithms and goes on to explore: global network properties, network centralities, network motifs, network clustering, Petri nets, signal transduction and gene regulation networks, protein interaction networks, metabolic networks, phylogenetic networks, ecological networks, and correlation networks. Analysis of Biological Networks is a self-contained introduction to this important research topic, assumes no expert knowledge in computer science or biology, and is accessible to professionals and students alike. Each chapter concludes with a summary of main points and with exercises for readers to test their understanding of the material presented. Additionally, an FTP site with links to author-provided data for the book is available for deeper study. This book is suitable as a resource for researchers in computer science, biology, bioinformatics, advanced biochemistry, and the life sciences, and also serves as an ideal reference text for graduate-level courses in bioinformatics and biological research.