Download or read book Learning Patterns in Dynamic Graphs with Application to Biological Networks written by Chang Hun You and published by . This book was released on 2009 with total page 117 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Graph Representation Learning written by William L. William L. Hamilton and published by Springer Nature. This book was released on 2022-06-01 with total page 141 pages. Available in PDF, EPUB and Kindle. Book excerpt: Graph-structured data is ubiquitous throughout the natural and social sciences, from telecommunication networks to quantum chemistry. Building relational inductive biases into deep learning architectures is crucial for creating systems that can learn, reason, and generalize from this kind of data. Recent years have seen a surge in research on graph representation learning, including techniques for deep graph embeddings, generalizations of convolutional neural networks to graph-structured data, and neural message-passing approaches inspired by belief propagation. These advances in graph representation learning have led to new state-of-the-art results in numerous domains, including chemical synthesis, 3D vision, recommender systems, question answering, and social network analysis. This book provides a synthesis and overview of graph representation learning. It begins with a discussion of the goals of graph representation learning as well as key methodological foundations in graph theory and network analysis. Following this, the book introduces and reviews methods for learning node embeddings, including random-walk-based methods and applications to knowledge graphs. It then provides a technical synthesis and introduction to the highly successful graph neural network (GNN) formalism, which has become a dominant and fast-growing paradigm for deep learning with graph data. The book concludes with a synthesis of recent advancements in deep generative models for graphs—a nascent but quickly growing subset of graph representation learning.
Download or read book Biomedical Data and Applications written by Amandeep S. Sidhu and published by Springer. This book was released on 2009-07-09 with total page 344 pages. Available in PDF, EPUB and Kindle. Book excerpt: Compared with data from general application domains, modern biological data has many unique characteristics. Biological data are often characterized as having large volumes, complex structures, high dimensionality, evolving biological concepts, and insufficient data modelling practices. Over the past several years, bioinformatics has become an all-encompassing term for everything relating to both computer science and biology. The goal of this book is to cover data and applications identifying new issues and directions for future research in biomedical domain. The book will become a useful guide learning state-of-the-art development in biomedical data management, data-intensive bioinformatics systems, and other miscellaneous biological database applications. The book addresses various topics in bioinformatics with varying degrees of balance between biomedical data models and their real-world applications.
Download or read book Complex Networks Their Applications VI written by Chantal Cherifi and published by Springer. This book was released on 2017-11-24 with total page 1290 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book highlights cutting-edge research in the field of network science, offering scientists, researchers, students and practitioners a unique update on the latest advances in theory and a multitude of applications. It presents the peer-reviewed proceedings of the VI International Conference on Complex Networks and their Applications (COMPLEX NETWORKS 2017), which took place in Lyon on November 29 – December 1, 2017. The carefully selected papers cover a wide range of theoretical topics such as network models and measures; community structure, network dynamics; diffusion, epidemics and spreading processes; resilience and control as well as all the main network applications, including social and political networks; networks in finance and economics; biological and ecological networks and technological networks.
Download or read book Discriminative Pattern Discovery on Biological Networks written by Fabio Fassetti and published by Springer. This book was released on 2017-09-01 with total page 51 pages. Available in PDF, EPUB and Kindle. Book excerpt: This work provides a review of biological networks as a model for analysis, presenting and discussing a number of illuminating analyses. Biological networks are an effective model for providing insights about biological mechanisms. Networks with different characteristics are employed for representing different scenarios. This powerful model allows analysts to perform many kinds of analyses which can be mined to provide interesting information about underlying biological behaviors. The text also covers techniques for discovering exceptional patterns, such as a pattern accounting for local similarities and also collaborative effects involving interactions between multiple actors (for example genes). Among these exceptional patterns, of particular interest are discriminative patterns, namely those which are able to discriminate between two input populations (for example healthy/unhealthy samples). In addition, the work includes a discussion on the most recent proposal on discovering discriminative patterns, in which there is a labeled network for each sample, resulting in a database of networks representing a sample set. This enables the analyst to achieve a much finer analysis than with traditional techniques, which are only able to consider an aggregated network of each population.
Download or read book Networks of the Brain written by Olaf Sporns and published by MIT Press. This book was released on 2016-02-12 with total page 433 pages. Available in PDF, EPUB and Kindle. Book excerpt: An integrative overview of network approaches to neuroscience explores the origins of brain complexity and the link between brain structure and function. Over the last decade, the study of complex networks has expanded across diverse scientific fields. Increasingly, science is concerned with the structure, behavior, and evolution of complex systems ranging from cells to ecosystems. In Networks of the Brain, Olaf Sporns describes how the integrative nature of brain function can be illuminated from a complex network perspective. Highlighting the many emerging points of contact between neuroscience and network science, the book serves to introduce network theory to neuroscientists and neuroscience to those working on theoretical network models. Sporns emphasizes how networks connect levels of organization in the brain and how they link structure to function, offering an informal and nonmathematical treatment of the subject. Networks of the Brain provides a synthesis of the sciences of complex networks and the brain that will be an essential foundation for future research.
Download or read book Application of Graph Based Data Mining to Biological Networks written by Chang hun You and published by . This book was released on 2005 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: A huge amount of biological data has been generated by long-term research. It is time to start to focus on a system-level understanding of bio-systems. Biological networks are networks of biochemical reactions, containing various objects and their relationships. Understanding of biological networks is a starting point of systems biology. Multi-relational data mining finds the relational patterns in both the entity attributes and relations in the data. A widely used representation for relational data is a graph consisting of vertices and edges between these vertices. Graph-based data mining, as one approach of multi-relational data mining, finds relational patterns in a graph representation of data. This thesis will present a graph representation of biological networks including almost all features of pathways, and apply the Subdue graph-based data mining system in both supervised and unsupervised settings. This research will also show that the patterns found by Subdue have important biological meaning.
Download or read book Advances in Knowledge Discovery and Data Mining written by Hady W. Lauw and published by Springer Nature. This book was released on 2020-05-08 with total page 906 pages. Available in PDF, EPUB and Kindle. Book excerpt: The two-volume set LNAI 12084 and 12085 constitutes the thoroughly refereed proceedings of the 24th Pacific-Asia Conference on Knowledge Discovery and Data Mining, PAKDD 2020, which was due to be held in Singapore, in May 2020. The conference was held virtually due to the COVID-19 pandemic. The 135 full papers presented were carefully reviewed and selected from 628 submissions. The papers present new ideas, original research results, and practical development experiences from all KDD related areas, including data mining, data warehousing, machine learning, artificial intelligence, databases, statistics, knowledge engineering, visualization, decision-making systems, and the emerging applications. They are organized in the following topical sections: recommender systems; classification; clustering; mining social networks; representation learning and embedding; mining behavioral data; deep learning; feature extraction and selection; human, domain, organizational and social factors in data mining; mining sequential data; mining imbalanced data; association; privacy and security; supervised learning; novel algorithms; mining multi-media/multi-dimensional data; application; mining graph and network data; anomaly detection and analytics; mining spatial, temporal, unstructured and semi-structured data; sentiment analysis; statistical/graphical model; multi-source/distributed/parallel/cloud computing.
Download or read book Networks in Cell Biology written by Mark Buchanan and published by Cambridge University Press. This book was released on 2010-05-13 with total page 282 pages. Available in PDF, EPUB and Kindle. Book excerpt: Key introductory text for graduate students and researchers in physics, biology and biochemistry.
Download or read book Graph Pattern Matching Approximate Matching And Dynamic Graph Indexing written by Wei Jin and published by . This book was released on 2011 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: In recent years, graph pattern matching, approximate graph matching and dynamic subgraph indexing have become important graph analysis tools due to the emergence of many new applications such as computational biology and social networks analysis. In this work we investigate these three related problems. For the first problem, in previous existing models, each edge in the query pattern represents the same relationship, e.g., the two endpoint vertices have to be connected or the distance between them should be within a certain uniform threshold. However, real world applications may require edges representing different relationships or distances. Therefore, we introduce the flexible pattern matching model where a range [mine; maxe] is associated with an edge e in the query pattern, which means that the minimum distance between the matched endpoints of e is in the range of [mine; maxe]. A novel pattern matching algorithm is devised, which consists of several innovations including preprocessing the query pattern, two types of indices, and a top-k matches generation scheme. For the second problem, we study the problem of finding approximate matches of a query graph in a large database graph with (possible) missing edges. The SAPPER method is proposed, utilizing the hybrid neighborhood unit structures in the index. SAPPER also takes advantage of pre-generated random spanning trees and a carefully designed graph enumeration order. For the third problem, to the best of our knowledge, most subgraph indexing focuses on the static database graphs. However, in real applications, database graphs may change over time. Thus, we propose an indexing structure, BR-index, for large dynamic graphs. The large database graph is partitioned into a set of overlapping index regions. Features (small subgraphs) are extracted from these regions and used to index them. The updates to G can be localized to a small number of these regions. To further improve the efficiency in updates and query processing, several novel techniques and data structures are invented, which include feature lattice, maximal features, and overlapping regions. Extensive empirical studies have been conducted to show the effectiveness and efficiency of our indices and methods.
Download or read book Pattern formation in biology written by Luis Diambra and published by Frontiers Media SA. This book was released on 2023-06-07 with total page 157 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book ECAI 2023 written by K. Gal and published by IOS Press. This book was released on 2023-10-18 with total page 3328 pages. Available in PDF, EPUB and Kindle. Book excerpt: Artificial intelligence, or AI, now affects the day-to-day life of almost everyone on the planet, and continues to be a perennial hot topic in the news. This book presents the proceedings of ECAI 2023, the 26th European Conference on Artificial Intelligence, and of PAIS 2023, the 12th Conference on Prestigious Applications of Intelligent Systems, held from 30 September to 4 October 2023 and on 3 October 2023 respectively in Kraków, Poland. Since 1974, ECAI has been the premier venue for presenting AI research in Europe, and this annual conference has become the place for researchers and practitioners of AI to discuss the latest trends and challenges in all subfields of AI, and to demonstrate innovative applications and uses of advanced AI technology. ECAI 2023 received 1896 submissions – a record number – of which 1691 were retained for review, ultimately resulting in an acceptance rate of 23%. The 390 papers included here, cover topics including machine learning, natural language processing, multi agent systems, and vision and knowledge representation and reasoning. PAIS 2023 received 17 submissions, of which 10 were accepted after a rigorous review process. Those 10 papers cover topics ranging from fostering better working environments, behavior modeling and citizen science to large language models and neuro-symbolic applications, and are also included here. Presenting a comprehensive overview of current research and developments in AI, the book will be of interest to all those working in the field.
Download or read book Handbook of Statistical Systems Biology written by Michael Stumpf and published by John Wiley & Sons. This book was released on 2011-09-09 with total page 624 pages. Available in PDF, EPUB and Kindle. Book excerpt: Systems Biology is now entering a mature phase in which the key issues are characterising uncertainty and stochastic effects in mathematical models of biological systems. The area is moving towards a full statistical analysis and probabilistic reasoning over the inferences that can be made from mathematical models. This handbook presents a comprehensive guide to the discipline for practitioners and educators, in providing a full and detailed treatment of these important and emerging subjects. Leading experts in systems biology and statistics have come together to provide insight in to the major ideas in the field, and in particular methods of specifying and fitting models, and estimating the unknown parameters. This book: Provides a comprehensive account of inference techniques in systems biology. Introduces classical and Bayesian statistical methods for complex systems. Explores networks and graphical modeling as well as a wide range of statistical models for dynamical systems. Discusses various applications for statistical systems biology, such as gene regulation and signal transduction. Features statistical data analysis on numerous technologies, including metabolic and transcriptomic technologies. Presents an in-depth presentation of reverse engineering approaches. Provides colour illustrations to explain key concepts. This handbook will be a key resource for researchers practising systems biology, and those requiring a comprehensive overview of this important field.
Download or read book Computational Network Analysis with R written by Matthias Dehmer and published by John Wiley & Sons. This book was released on 2016-08-09 with total page 368 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book A Wavelet Tour of Signal Processing written by Stephane Mallat and published by Elsevier. This book was released on 1999-09-14 with total page 663 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book is intended to serve as an invaluable reference for anyone concerned with the application of wavelets to signal processing. It has evolved from material used to teach "wavelet signal processing" courses in electrical engineering departments at Massachusetts Institute of Technology and Tel Aviv University, as well as applied mathematics departments at the Courant Institute of New York University and ÉcolePolytechnique in Paris. - Provides a broad perspective on the principles and applications of transient signal processing with wavelets - Emphasizes intuitive understanding, while providing the mathematical foundations and description of fast algorithms - Numerous examples of real applications to noise removal, deconvolution, audio and image compression, singularity and edge detection, multifractal analysis, and time-varying frequency measurements - Algorithms and numerical examples are implemented in Wavelab, which is a Matlab toolbox freely available over the Internet - Content is accessible on several level of complexity, depending on the individual reader's needs New to the Second Edition - Optical flow calculation and video compression algorithms - Image models with bounded variation functions - Bayes and Minimax theories for signal estimation - 200 pages rewritten and most illustrations redrawn - More problems and topics for a graduate course in wavelet signal processing, in engineering and applied mathematics
Download or read book Encyclopedia of Bioinformatics and Computational Biology written by and published by Elsevier. This book was released on 2018-08-21 with total page 3421 pages. Available in PDF, EPUB and Kindle. Book excerpt: Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, Three Volume Set combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases
Download or read book Biological Network Analysis written by Pietro Hiram Guzzi and published by Elsevier. This book was released on 2020-05-11 with total page 212 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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
