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Statistical and Evolutionary Analysis of Biological Networks
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 evolut...
Visualization in Medicine and Life Sciences
Visualization technology is becoming increasingly important for medical and biomedical data processing and analysis. The interaction between visualization and medicine is one of the fastest expanding fields, both scientifically and commercially. This book discusses some of the latest visualization techniques and systems for effective analysis of such diverse, large, complex, and multi-source data.
Graph Drawing
This book constitutes the thoroughly refereed post-proceedings of the 10th International Symposium on Graph Drawing, GD 2002, held in Irvine, CA, USA, in August 2002. The 24 revised full papers, 9 short papers, and 7 software demonstrations presented together with a report on the GD 2002 graph drawing contest were carefully reviewed and selected from a total of 48 regular paper submissions. All current aspects of graph drawing are addressed.
Data Management of Protein Interaction Networks
Current PPI databases do not offer sophisticated querying interfaces and especially do not integrate existing information about proteins. Current algorithms for PIN analysis use only topological information, while emerging approaches attempt to exploit the biological knowledge related to proteins and kinds of interaction, e.g. protein function, localization, structure, described in Gene Ontology or PDB. The book discusses technologies, standards and databases for, respectively, generating, representing and storing PPI data. It also describes main algorithms and tools for the analysis, comparison and knowledge extraction from PINs. Moreover, some case studies and applications of PINs are also discussed.
Graph Drawing Software
After an introduction to the subject area and a concise treatment of the technical foundations for the subsequent chapters, this book features 14 chapters on state-of-the-art graph drawing software systems, ranging from general "tool boxes'' to customized software for various applications. These chapters are written by leading experts: they follow a uniform scheme and can be read independently from each other. The text covers many industrial applications.
Integrative Bioinformatics
This book provides an overview of the history of integrative bioinformatics and the actual situation and the relevant tools. Subjects cover the essential topics, basic introductions, and latest developments; biological data integration and manipulation; modeling and simulation of networks; as well as a number of applications of integrative bioinformatics. It aims to provide basic introduction of biological information systems and guidance for the computational analysis of systems biology. This book covers a range of issues and methods that unveil a multitude of omics data integration and relevance that integrative bioinformatics has today. It contains a unique compilation of invited and selected articles from the Journal of Integrative Bioinformatics (JIB) and annual meetings of the International Symposium on Integrative Bioinformatics.
Analysis of Biological Networks
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 Networ...
Rough-Fuzzy Pattern Recognition
Learn how to apply rough-fuzzy computing techniques to solve problems in bioinformatics and medical image processing Emphasizing applications in bioinformatics and medical image processing, this text offers a clear framework that enables readers to take advantage of the latest rough-fuzzy computing techniques to build working pattern recognition models. The authors explain step by step how to integrate rough sets with fuzzy sets in order to best manage the uncertainties in mining large data sets. Chapters are logically organized according to the major phases of pattern recognition systems development, making it easier to master such tasks as classification, clustering, and feature selection....
Graph Drawing
This book constitutes the thoroughly refereed post-proceedings of the 9th International Symposium on Graph Drawing, GD 2001, held in Vienna, Austria, in September 2001. The 32 revised full papers presented were carefully reviewed and selected from 66 paper submissions. Also included are a corrected version of a paper from the predecessor volume, short reports on the software systems exhibition, two papers of the special session on graph exchange formats, and a report on the annual graph drawing contests. The papers are organized in topical sections on hierarchical drawing, planarity, crossing theory, compaction, planar graphs, symmetries, interactive drawing, representations, aesthetics, 2D- and 3D-embeddings, data visualization, floor planning, and planar drawing.
Multiple Biological Sequence Alignment
Covers the fundamentals and techniques of multiple biological sequence alignment and analysis, and shows readers how to choose the appropriate sequence analysis tools for their tasks This book describes the traditional and modern approaches in biological sequence alignment and homology search. This book contains 11 chapters, with Chapter 1 providing basic information on biological sequences. Next, Chapter 2 contains fundamentals in pair-wise sequence alignment, while Chapters 3 and 4 examine popular existing quantitative models and practical clustering techniques that have been used in multiple sequence alignment. Chapter 5 describes, characterizes and relates many multiple sequence alignmen...
