Skip to main content

Biological Network Analysis

In Order to Read Online or Download Biological Network Analysis Full eBooks in PDF, EPUB, Tuebl and Mobi you need to create a Free account. Get any books you like and read everywhere you want. Fast Download Speed ~ Commercial & Ad Free. We cannot guarantee that every book is in the library!

Biological Network Analysis

Biological Network Analysis Book
Author : Pietro Hiram Guzzi,Swarup Roy
Publisher : Elsevier
Release : 2020-05-11
ISBN : 0128193514
Language : En, Es, Fr & De

GET BOOK

Book Description :

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. Presents recent advances in biological network analysis, combining Graph Theory, Graph Analysis, and various network models Discusses three major biological networks, including Gene Regulatory Networks (GRN), Protein-Protein Interaction Networks (PPIN) and Human Brain Connectomes Includes a discussion of various graph theoretic and data analytics approaches

Analysis of Biological Networks

Analysis of Biological Networks Book
Author : Björn H. Junker,Falk Schreiber
Publisher : John Wiley & Sons
Release : 2011-09-20
ISBN : 1118209915
Language : En, Es, Fr & De

GET BOOK

Book Description :

An introduction to biological networks and methods for theiranalysis Analysis of Biological Networks is the first book of itskind to provide readers with a comprehensive introduction to thestructural analysis of biological networks at the interface ofbiology and computer science. The book begins with a brief overviewof biological networks and graph theory/graph algorithms and goeson to explore: global network properties, network centralities,network motifs, network clustering, Petri nets, signal transductionand gene regulation networks, protein interaction networks,metabolic networks, phylogenetic networks, ecological networks, andcorrelation networks. Analysis of Biological Networks is a self-containedintroduction to this important research topic, assumes no expertknowledge in computer science or biology, and is accessible toprofessionals and students alike. Each chapter concludes with asummary of main points and with exercises for readers to test theirunderstanding of the material presented. Additionally, an FTP sitewith links to author-provided data for the book is available fordeeper study. This book is suitable as a resource for researchers in computerscience, biology, bioinformatics, advanced biochemistry, and thelife sciences, and also serves as an ideal reference text forgraduate-level courses in bioinformatics and biologicalresearch.

Computational Network Analysis with R

Computational Network Analysis with R Book
Author : Matthias Dehmer,Yongtang Shi,Frank Emmert-Streib
Publisher : John Wiley & Sons
Release : 2016-12-12
ISBN : 3527339582
Language : En, Es, Fr & De

GET BOOK

Book Description :

This new title in the well-established "Quantitative Network Biology" series includes innovative and existing methods for analyzing network data in such areas as network biology and chemoinformatics. With its easy-to-follow introduction to the theoretical background and application-oriented chapters, the book demonstrates that R is a powerful language for statistically analyzing networks and for solving such large-scale phenomena as network sampling and bootstrapping. Written by editors and authors with an excellent track record in the field, this is the ultimate reference for R in Network Analysis.

Recent Advances in Biological Network Analysis

Recent Advances in Biological Network Analysis Book
Author : Byung-Jun Yoon,Xiaoning Qian
Publisher : Springer Nature
Release : 2021-01-13
ISBN : 3030571734
Language : En, Es, Fr & De

GET BOOK

Book Description :

This book reviews recent advances in the emerging field of computational network biology with special emphasis on comparative network analysis and network module detection. The chapters in this volume are contributed by leading international researchers in computational network biology and offer in-depth insight on the latest techniques in network alignment, network clustering, and network module detection. Chapters discuss the advantages of the respective techniques and present the current challenges and open problems in the field. Recent Advances in Biological Network Analysis: Comparative Network Analysis and Network Module Detection will serve as a great resource for graduate students, academics, and researchers who are currently working in areas relevant to computational network biology or wish to learn more about the field. Data scientists whose work involves the analysis of graphs, networks, and other types of data with topological structure or relations can also benefit from the book's insights.

Statistical and Evolutionary Analysis of Biological Networks

Statistical and Evolutionary Analysis of Biological Networks Book
Author : Michael P. H. Stumpf,Carsten Wiuf
Publisher : World Scientific
Release : 2010
ISBN : 1848164335
Language : En, Es, Fr & De

GET BOOK

Book Description :

Networks provide a very useful way to describe a wide range of different data types in biology, physics and elsewhere. Apart from providing a convenient tool to visualize highly dependent data, networks allow stringent mathematical and statistical analysis. In recent years, much progress has been achieved to interpret various types of biological network data such as transcriptomic, metabolomic and protein interaction data as well as epidemiological data. Of particular interest is to understand the organization, complexity and dynamics of biological networks and how these are influenced by network evolution and functionality. This book reviews and explores statistical, mathematical and evolutionary theory and tools in the understanding of biological networks. The book is divided into comprehensive and self-contained chapters, each of which focuses on an important biological network type, explains concepts and theory and illustrates how these can be used to obtain insight into biologically relevant processes and questions. There are chapters covering metabolic, transcriptomic, protein interaction and epidemiological networks as well as chapters that deal with theoretical and conceptual material. The authors, who contribute to the book, are active, highly regarded and well-known in the network community.

Biological Networks and Pathway Analysis

Biological Networks and Pathway Analysis Book
Author : Tatiana V. Tatarinova,Yuri Nikolsky
Publisher : Humana Press
Release : 2017-08-29
ISBN : 9781493970254
Language : En, Es, Fr & De

GET BOOK

Book Description :

In this volume, expert practitioners present a compilation of methods of functional data analysis (often referred to as “systems biology”) and its applications in drug discovery, medicine, and basic disease research. It covers such important issues as the elucidation of protein, compound and gene interactions, as well as analytical tools, including networks, interactome and ontologies, and clinical applications of functional analysis. As a volume in the highly successful Methods in Molecular Biology series, this work provides detailed description and hands-on implementation advice. Reputable, comprehensive, and cutting-edge, Biological Networks and Pathway Analysis presents both “wet lab” experimental methods and computational tools in order to cover a broad spectrum of issues in this fascinating new field.

Networks of Networks in Biology

Networks of Networks in Biology Book
Author : Narsis A. Kiani,David Gomez-Cabrero,Ginestra Bianconi
Publisher : Cambridge University Press
Release : 2021-03-31
ISBN : 1108428878
Language : En, Es, Fr & De

GET BOOK

Book Description :

Introduces network inspired approaches for the analysis and integration of large, heterogeneous data sets in the life sciences.

Weighted Network Analysis

Weighted Network Analysis Book
Author : Steve Horvath
Publisher : Springer Science & Business Media
Release : 2011-04-30
ISBN : 144198819X
Language : En, Es, Fr & De

GET BOOK

Book Description :

High-throughput measurements of gene expression and genetic marker data facilitate systems biologic and systems genetic data analysis strategies. Gene co-expression networks have been used to study a variety of biological systems, bridging the gap from individual genes to biologically or clinically important emergent phenotypes.

Thermodynamic Network Analysis of Biological Systems

Thermodynamic Network Analysis of Biological Systems Book
Author : J. Schnakenberg
Publisher : Springer Science & Business Media
Release : 2012-12-06
ISBN : 3642679714
Language : En, Es, Fr & De

GET BOOK

Book Description :

The first edition of this book was greeted with broad interest from readers en gaged in various disciplines of biophysics. I received many stimulating and en couraging responses, however, some of the book's reviewers wanted to stress the fact that an extensive literature of network theory was not included or reported in the book. But the main aspect of the book is intended to be substantive rather than methodical: networks simply serve as a remedy for doing some first steps in analysing and modelling complex biological systems. For an advanced stage in the investigation of a particular system it may be appropriate to replace the pheno menological network method by more detailed techniques like statistical equations or computer simulations. According to this intention, the second edition of the book has been enlarged by further biological examples for network analysis, not by more network theory. There is a completely new section on a network model for photoreception. For this section I am obliged to J. Tiedge who did most of the detailed calculation and to my colleague Professor Stieve with whom we have had a very fruitful cooperation. Also I would like to mention that this work has been sponsored by the "Deutsche Forschungsgemei nschaft" i n the "Sonderforschungsberei ch 160". Recent results for excitable systems represented by feedback networks have also been included in the second edition, especially for limit cycle networks.

Biological Data Mining in Protein Interaction Networks

Biological Data Mining in Protein Interaction Networks Book
Author : Li, Xiao-Li,Ng, See-Kiong
Publisher : IGI Global
Release : 2009-05-31
ISBN : 1605663999
Language : En, Es, Fr & De

GET BOOK

Book Description :

"The goal of this book is to disseminate research results and best practices from cross-disciplinary researchers and practitioners interested in, and working on bioinformatics, data mining, and proteomics"--Provided by publisher.

An Introduction to Systems Biology

An Introduction to Systems Biology Book
Author : Uri Alon
Publisher : CRC Press
Release : 2019-07-12
ISBN : 1000001326
Language : En, Es, Fr & De

GET BOOK

Book Description :

Praise for the first edition: ... superb, beautifully written and organized work that takes an engineering approach to systems biology. Alon provides nicely written appendices to explain the basic mathematical and biological concepts clearly and succinctly without interfering with the main text. He starts with a mathematical description of transcriptional activation and then describes some basic transcription-network motifs (patterns) that can be combined to form larger networks. – Nature [This text deserves] serious attention from any quantitative scientist who hopes to learn about modern biology ... It assumes no prior knowledge of or even interest in biology ... One final aspect that must be mentioned is the wonderful set of exercises that accompany each chapter. ... Alon’s book should become a standard part of the training of graduate students. – Physics Today Written for students and researchers, the second edition of this best-selling textbook continues to offer a clear presentation of design principles that govern the structure and behavior of biological systems. It highlights simple, recurring circuit elements that make up the regulation of cells and tissues. Rigorously classroom-tested, this edition includes new chapters on exciting advances made in the last decade. Features: Includes seven new chapters The new edition has 189 exercises, the previous edition had 66 Offers new examples relevant to human physiology and disease

A Practical Guide To Cancer Systems Biology

A Practical Guide To Cancer Systems Biology Book
Author : Juan Hsueh-fen,Huang Hsuan-cheng
Publisher : World Scientific
Release : 2017-11-29
ISBN : 9813229160
Language : En, Es, Fr & De

GET BOOK

Book Description :

Systems biology combines computational and experimental approaches to analyze complex biological systems and focuses on understanding functional activities from a systems-wide perspective. It provides an iterative process of experimental measurements, data analysis, and computational simulation to model biological behavior. This book provides explained protocols for high-throughput experiments and computational analysis procedures central to cancer systems biology research and education. Readers will learn how to generate and analyze high-throughput data, therapeutic target protein structure modeling and docking simulation for drug discovery. This is the first practical guide for students and scientists who wish to become systems biologists or utilize the approach for cancer research. Contents: Introduction to Cancer Systems Biology (Hsueh-Fen Juan and Hsuan-Cheng Huang)Transcriptome Analysis: Library Construction (Hsin-Yi Chang and Hsueh-Fen Juan)Quantitative Proteome: The Isobaric Tags for Relative and Absolute Quantitation (iTRAQ) (Yi-Hsuan Wu and Hsueh-Fen Juan)Phosphoproteome: Sample Preparation (Chia-Wei Hu and Hsueh-Fen Juan)Transcriptomic Data Analysis: RNA-Seq Analysis Using Galaxy (Chia-Lang Hsu and Chantal Hoi Yin Cheung)Proteomic Data Analysis: Functional Enrichment (Hsin-Yi Chang and Hsueh-Fen Juan)Phosphorylation Data Analysis (Chia-Lang Hsu and Wei-Hsuan Wang)Pathway and Network Analysis (Chen-Tsung Huang and Hsueh-Fen Juan)Dynamic Modeling (Yu-Chao Wang)Protein Structure Modeling (Chia-Hsien Lee and Hsueh-Fen Juan)Docking Simulation (Chia-Hsien Lee and Hsueh-Fen Juan) Readership: Graduate students and researchers entering the cancer systems biology field. Keywords: Systems Biology;Transcriptomics;Proteomics;Network Biology;Dynamic Modeling;Protein Structure Modeling;Docking Simulation;BioinformaticsReview: Key Features: Written by two active researchers in the fieldCovers both experimental and computational areas in cancer systems biologyStep-by-step instructions help beginners who are interested in creating biological data and analyzing the data by themselvesReaders will gain the skills to generate and analyze omics data and discover potential therapeutic targets and drug candidates

Handbook on Biological Networks

Handbook on Biological Networks Book
Author : Stefano Boccaletti,Vito Latora,Yamir Moreno
Publisher : World Scientific
Release : 2010
ISBN : 9812838791
Language : En, Es, Fr & De

GET BOOK

Book Description :

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 ? 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.

Encyclopedia of Social Network Analysis and Mining

Encyclopedia of Social Network Analysis and Mining Book
Author : Reda Alhajj,Jon Rokne
Publisher : Springer
Release : 2018-05-02
ISBN : 9781493971305
Language : En, Es, Fr & De

GET BOOK

Book Description :

Social Network Analysis and Mining Encyclopedia (ESNAM) is the first major reference work to integrate fundamental concepts and research directions in the areas of social networks and applications to data mining. The second edition of ESNAM is a truly outstanding reference appealing to researchers, practitioners, instructors and students (both undergraduate and graduate), as well as the general public. This updated reference integrates all basics concepts and research efforts under one umbrella. Coverage has been expanded to include new emerging topics such as crowdsourcing, opinion mining, and sentiment analysis. Revised content of existing material keeps the encyclopedia current. The second edition is intended for college students as well as public and academic libraries. It is anticipated to continue to stimulate more awareness of social network applications and research efforts. The advent of electronic communication, and in particul ar on-line communities, have created social networks of hitherto unimaginable sizes. Reflecting the interdisciplinary nature of this unique field, the essential contributions of diverse disciplines, from computer science, mathematics, and statistics to sociology and behavioral science, are described among the 300 authoritative yet highly readable entries. Students will find a world of information and insight behind the familiar façade of the social networks in which they participate. Researchers and practitioners will benefit from a comprehensive perspective on the methodologies for analysis of constructed networks, and the data mining and machine learning techniques that have proved attractive for sophisticated knowledge discovery in complex applications. Also addressed is the application of social network methodologies to other domains, such as web networks and biological networks.

Artificial Neural Networks in Biological and Environmental Analysis

Artificial Neural Networks in Biological and Environmental Analysis Book
Author : Grady Hanrahan
Publisher : CRC Press
Release : 2011-01-18
ISBN : 9781439812594
Language : En, Es, Fr & De

GET BOOK

Book Description :

Originating from models of biological neural systems, artificial neural networks (ANN) are the cornerstones of artificial intelligence research. Catalyzed by the upsurge in computational power and availability, and made widely accessible with the co-evolution of software, algorithms, and methodologies, artificial neural networks have had a profound impact in the elucidation of complex biological, chemical, and environmental processes. Artificial Neural Networks in Biological and Environmental Analysis provides an in-depth and timely perspective on the fundamental, technological, and applied aspects of computational neural networks. Presenting the basic principles of neural networks together with applications in the field, the book stimulates communication and partnership among scientists in fields as diverse as biology, chemistry, mathematics, medicine, and environmental science. This interdisciplinary discourse is essential not only for the success of independent and collaborative research and teaching programs, but also for the continued interest in the use of neural network tools in scientific inquiry. The book covers: A brief history of computational neural network models in relation to brain function Neural network operations, including neuron connectivity and layer arrangement Basic building blocks of model design, selection, and application from a statistical perspective Neurofuzzy systems, neuro-genetic systems, and neuro-fuzzy-genetic systems Function of neural networks in the study of complex natural processes Scientists deal with very complicated systems, much of the inner workings of which are frequently unknown to researchers. Using only simple, linear mathematical methods, information that is needed to truly understand natural systems may be lost. The development of new algorithms to model such processes is needed, and ANNs can play a major role. Balancing basic principles and diverse applications, this text introduces newcomers to the field and reviews recent developments of interest to active neural network practitioners.

Bioinformatics and Human Genomics Research

Bioinformatics and Human Genomics Research Book
Author : Diego A. Forero
Publisher : CRC Press
Release : 2021-12-23
ISBN : 1000405672
Language : En, Es, Fr & De

GET BOOK

Book Description :

Advances in high-throughput biological methods have led to the publication of a large number of genome-wide studies in human and animal models. In this context, recent tools from bioinformatics and computational biology have been fundamental for the analysis of these genomic studies. The book Bioinformatics and Human Genomics Research provides updated and comprehensive information about multiple approaches of the application of bioinformatic tools to research in human genomics. It covers strategies analysis of genome-wide association studies, genome-wide expression studies and genome-wide DNA methylation, among other topics. It provides interesting strategies for data mining in human genomics, network analysis, prediction of binding sites for miRNAs and transcription factors, among other themes. Experts from all around the world in bioinformatics and human genomics have contributed chapters in this book. Readers will find this book as quite useful for their in silico explorations, which would contribute to a better and deeper understanding of multiple biological processes and of pathophysiology of many human diseases.

Biological Networks

Biological Networks Book
Author : Fran‡ois K‚pŠs
Publisher : World Scientific
Release : 2007
ISBN : 981270695X
Language : En, Es, Fr & De

GET BOOK

Book Description :

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 Systems Science in Biomedicine

Complex Systems Science in Biomedicine Book
Author : Thomas Deisboeck,J. Yasha Kresh
Publisher : Springer Science & Business Media
Release : 2007-06-13
ISBN : 0387335323
Language : En, Es, Fr & De

GET BOOK

Book Description :

Complex Systems Science in Biomedicine Thomas S. Deisboeck and J. Yasha Kresh Complex Systems Science in Biomedicine covers the emerging field of systems science involving the application of physics, mathematics, engineering and computational methods and techniques to the study of biomedicine including nonlinear dynamics at the molecular, cellular, multi-cellular tissue, and organismic level. With all chapters helmed by leading scientists in the field, Complex Systems Science in Biomedicine's goal is to offer its audience a timely compendium of the ongoing research directed to the understanding of biological processes as whole systems instead of as isolated component parts. In Parts I & II, Complex Systems Science in Biomedicine provides a general systems thinking perspective and presents some of the fundamental theoretical underpinnings of this rapidly emerging field. Part III then follows with a multi-scaled approach, spanning from the molecular to macroscopic level, exemplified by studying such diverse areas as molecular networks and developmental processes, the immune and nervous systems, the heart, cancer and multi-organ failure. The volume concludes with Part IV that addresses methods and techniques driven in design and development by this new understanding of biomedical science. Key Topics Include: • Historic Perspectives of General Systems Thinking • Fundamental Methods and Techniques for Studying Complex Dynamical Systems • Applications from Molecular Networks to Disease Processes • Enabling Technologies for Exploration of Systems in the Life Sciences Complex Systems Science in Biomedicine is essential reading for experimental, theoretical, and interdisciplinary scientists working in the biomedical research field interested in a comprehensive overview of this rapidly emerging field. About the Editors: Thomas S. Deisboeck is currently Assistant Professor of Radiology at Massachusetts General Hospital and Harvard Medical School in Boston. An expert in interdisciplinary cancer modeling, Dr. Deisboeck is Director of the Complex Biosystems Modeling Laboratory which is part of the Harvard-MIT Martinos Center for Biomedical Imaging. J. Yasha Kresh is currently Professor of Cardiothoracic Surgery and Research Director, Professor of Medicine and Director of Cardiovascular Biophysics at the Drexel University College of Medicine. An expert in dynamical systems, he holds appointments in the School of Biomedical Engineering and Health Systems, Dept. of Mechanical Engineering and Molecular Pathobiology Program. Prof. Kresh is Fellow of the American College of Cardiology, American Heart Association, Biomedical Engineering Society, American Institute for Medical and Biological Engineering.

Network Analysis Literacy

Network Analysis Literacy Book
Author : Katharina A. Zweig
Publisher : Springer Science & Business Media
Release : 2016-10-26
ISBN : 3709107415
Language : En, Es, Fr & De

GET BOOK

Book Description :

This book presents a perspective of network analysis as a tool to find and quantify significant structures in the interaction patterns between different types of entities. Moreover, network analysis provides the basic means to relate these structures to properties of the entities. It has proven itself to be useful for the analysis of biological and social networks, but also for networks describing complex systems in economy, psychology, geography, and various other fields. Today, network analysis packages in the open-source platform R and other open-source software projects enable scientists from all fields to quickly apply network analytic methods to their data sets. Altogether, these applications offer such a wealth of network analytic methods that it can be overwhelming for someone just entering this field. This book provides a road map through this jungle of network analytic methods, offers advice on how to pick the best method for a given network analytic project, and how to avoid common pitfalls. It introduces the methods which are most often used to analyze complex networks, e.g., different global network measures, types of random graph models, centrality indices, and networks motifs. In addition to introducing these methods, the central focus is on network analysis literacy – the competence to decide when to use which of these methods for which type of question. Furthermore, the book intends to increase the reader's competence to read original literature on network analysis by providing a glossary and intensive translation of formal notation and mathematical symbols in everyday speech. Different aspects of network analysis literacy – understanding formal definitions, programming tasks, or the analysis of structural measures and their interpretation – are deepened in various exercises with provided solutions. This text is an excellent, if not the best starting point for all scientists who want to harness the power of network analysis for their field of expertise.

Protein Networks and Pathway Analysis

Protein Networks and Pathway Analysis Book
Author : Yuri Nikolsky,Julie Bryant
Publisher : Humana Press
Release : 2011-11-30
ISBN : 9781617794889
Language : En, Es, Fr & De

GET BOOK

Book Description :

From the beginning of the OMICs biology era, science has been pursuing the reduction of the complex "genome-wide" assays in order to understand the essential biology that lies beneath it. In Protein Networks and Pathway Analysis, expert practitioners present a compilation of methods of functional data analysis, often referred to as "systems biology," and its applications in drug discovery, medicine and basic disease research. The volume is divided into three convenient sections, covering the elucidation of protein, compound and gene interactions, analytical tools, including networks, interactome and ontologies, and applications of functional analysis. As a volume in the highly successful Methods in Molecular BiologyTM series, this work provides detailed descriptions and hands-on implementation advice. Authoritative and cutting-edge, Protein Networks and Pathway Analysis presents both "wet lab" experimental methods and computational tools in order to cover a broad spectrum of issues in this fascinating new field.