Biological Network Analysis

Biological Network Analysis
Author: Pietro Hiram Guzzi,Swarup Roy
Publsiher: Elsevier
Total Pages: 210
Release: 2020-05-11
ISBN 10: 0128193514
ISBN 13: 9780128193518
Language: EN, FR, DE, ES & NL

Biological Network Analysis Book Review:

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
Author: Björn H. Junker,Falk Schreiber
Publsiher: John Wiley & Sons
Total Pages: 368
Release: 2011-09-20
ISBN 10: 1118209915
ISBN 13: 9781118209912
Language: EN, FR, DE, ES & NL

Analysis of Biological Networks Book Review:

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
Author: Matthias Dehmer,Yongtang Shi,Frank Emmert-Streib
Publsiher: John Wiley & Sons
Total Pages: 368
Release: 2016-12-12
ISBN 10: 3527339582
ISBN 13: 9783527339587
Language: EN, FR, DE, ES & NL

Computational Network Analysis with R Book Review:

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.

Biological Networks and Pathway Analysis

Biological Networks and Pathway Analysis
Author: Tatiana V. Tatarinova,Yuri Nikolsky
Publsiher: Humana Press
Total Pages: 509
Release: 2017-08-29
ISBN 10: 9781493970254
ISBN 13: 1493970259
Language: EN, FR, DE, ES & NL

Biological Networks and Pathway Analysis Book Review:

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.

Statistical and Evolutionary Analysis of Biological Networks

Statistical and Evolutionary Analysis of Biological Networks
Author: Michael P. H. Stumpf,Carsten Wiuf
Publsiher: World Scientific
Total Pages: 170
Release: 2010
ISBN 10: 1848164335
ISBN 13: 9781848164338
Language: EN, FR, DE, ES & NL

Statistical and Evolutionary Analysis of Biological Networks Book Review:

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.

Networks of Networks in Biology

Networks of Networks in Biology
Author: Narsis A. Kiani,David Gomez-Cabrero,Ginestra Bianconi
Publsiher: Cambridge University Press
Total Pages: 400
Release: 2021-03-31
ISBN 10: 1108428878
ISBN 13: 9781108428873
Language: EN, FR, DE, ES & NL

Networks of Networks in Biology Book Review:

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

Recent Advances in Biological Network Analysis

Recent Advances in Biological Network Analysis
Author: Byung-Jun Yoon,Xiaoning Qian
Publsiher: Springer Nature
Total Pages: 217
Release: 2021-01-13
ISBN 10: 3030571734
ISBN 13: 9783030571733
Language: EN, FR, DE, ES & NL

Recent Advances in Biological Network Analysis Book Review:

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.

Analyzing Network Data in Biology and Medicine

Analyzing Network Data in Biology and Medicine
Author: Nata a Pr ulj,Nataša Pržulj
Publsiher: Cambridge University Press
Total Pages: 672
Release: 2019-03-28
ISBN 10: 1108432239
ISBN 13: 9781108432238
Language: EN, FR, DE, ES & NL

Analyzing Network Data in Biology and Medicine Book Review:

Introduces biological concepts and biotechnologies producing the data, graph and network theory, cluster analysis and machine learning, using real-world biological and medical examples.

Weighted Network Analysis

Weighted Network Analysis
Author: Steve Horvath
Publsiher: Springer Science & Business Media
Total Pages: 421
Release: 2011-04-30
ISBN 10: 144198819X
ISBN 13: 9781441988195
Language: EN, FR, DE, ES & NL

Weighted Network Analysis Book Review:

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
Author: J. Schnakenberg
Publsiher: Springer Science & Business Media
Total Pages: 150
Release: 2012-12-06
ISBN 10: 3642679714
ISBN 13: 9783642679711
Language: EN, FR, DE, ES & NL

Thermodynamic Network Analysis of Biological Systems Book Review:

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
Author: Li, Xiao-Li,Ng, See-Kiong
Publsiher: IGI Global
Total Pages: 450
Release: 2009-05-31
ISBN 10: 1605663999
ISBN 13: 9781605663999
Language: EN, FR, DE, ES & NL

Biological Data Mining in Protein Interaction Networks Book Review:

"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.

A Practical Guide To Cancer Systems Biology

A Practical Guide To Cancer Systems Biology
Author: Juan Hsueh-fen,Huang Hsuan-cheng
Publsiher: World Scientific
Total Pages: 152
Release: 2017-11-29
ISBN 10: 9813229160
ISBN 13: 9789813229167
Language: EN, FR, DE, ES & NL

A Practical Guide To Cancer Systems Biology Book Review:

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

An Introduction to Systems Biology

An Introduction to Systems Biology
Author: Uri Alon
Publsiher: CRC Press
Total Pages: 324
Release: 2019-07-12
ISBN 10: 1000001326
ISBN 13: 9781000001327
Language: EN, FR, DE, ES & NL

An Introduction to Systems Biology Book Review:

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

Bioinformatics and Human Genomics Research

Bioinformatics and Human Genomics Research
Author: Diego A. Forero
Publsiher: Unknown
Total Pages: 290
Release: 2021
ISBN 10: 9780367437602
ISBN 13: 0367437600
Language: EN, FR, DE, ES & NL

Bioinformatics and Human Genomics Research Book Review:

The book Bioinformatics and Human Genomics Research provides up to date and comprehensive information about multiple approaches of bioinformatic tools in research in human genomics. Experts, from around the worlds of the applications in bioinformatics and human genomics have contributed chapters in the book.

Artificial Neural Networks in Biological and Environmental Analysis

Artificial Neural Networks in Biological and Environmental Analysis
Author: Grady Hanrahan
Publsiher: CRC Press
Total Pages: 214
Release: 2011-01-18
ISBN 10: 9781439812594
ISBN 13: 1439812594
Language: EN, FR, DE, ES & NL

Artificial Neural Networks in Biological and Environmental Analysis Book Review:

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.

Introduction to Biological Networks

Introduction to Biological Networks
Author: Alpan Raval,Animesh Ray
Publsiher: CRC Press
Total Pages: 335
Release: 2016-04-19
ISBN 10: 1420010360
ISBN 13: 9781420010367
Language: EN, FR, DE, ES & NL

Introduction to Biological Networks Book Review:

The new research area of genomics-inspired network biology lacks an introductory book that enables both physical/computational scientists and biologists to obtain a general yet sufficiently rigorous perspective of current thinking. Filling this gap, Introduction to Biological Networks provides a thorough introduction to genomics-inspired network bi

Biological Networks

Biological Networks
Author: Fran‡ois K‚pŠs
Publsiher: World Scientific
Total Pages: 516
Release: 2007
ISBN 10: 981270695X
ISBN 13: 9789812706959
Language: EN, FR, DE, ES & NL

Biological Networks Book Review:

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.

Protein Networks and Pathway Analysis

Protein Networks and Pathway Analysis
Author: Yuri Nikolsky,Julie Bryant
Publsiher: Humana Press
Total Pages: 410
Release: 2011-11-30
ISBN 10: 9781617794889
ISBN 13: 1617794880
Language: EN, FR, DE, ES & NL

Protein Networks and Pathway Analysis Book Review:

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.

Handbook on Biological Networks

Handbook on Biological Networks
Author: Stefano Boccaletti,Vito Latora,Yamir Moreno
Publsiher: World Scientific
Total Pages: 441
Release: 2010
ISBN 10: 9812838791
ISBN 13: 9789812838797
Language: EN, FR, DE, ES & NL

Handbook on Biological Networks Book Review:

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.

Complex Systems Science in Biomedicine

Complex Systems Science in Biomedicine
Author: Thomas Deisboeck,J. Yasha Kresh
Publsiher: Springer Science & Business Media
Total Pages: 864
Release: 2007-06-13
ISBN 10: 0387335323
ISBN 13: 9780387335322
Language: EN, FR, DE, ES & NL

Complex Systems Science in Biomedicine Book Review:

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.