Graph Representation Learning

Graph Representation Learning

Author: William L. William L. Hamilton

Publisher: Springer Nature

Published: 2022-06-01

Total Pages: 141

ISBN-13: 3031015886

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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.


Probabilistic Boolean Networks

Probabilistic Boolean Networks

Author: Ilya Shmulevich

Publisher: SIAM

Published: 2010-01-21

Total Pages: 276

ISBN-13: 0898716926

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The first comprehensive treatment of probabilistic Boolean networks, unifying different strands of current research and addressing emerging issues.


Network-based Mathematical Modeling in Cell and Developmental Biology

Network-based Mathematical Modeling in Cell and Developmental Biology

Author: Susan Mertins

Publisher: Frontiers Media SA

Published: 2024-08-22

Total Pages: 137

ISBN-13: 283255346X

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The vast amount of knowledge in Cell Signaling gathered through reductionist efforts and omics technology is poised to approach a Systems Biology understanding of precise representations of cell structure and function and predictions at multi-scale levels despite the complexity. Super-resolution microscopy and single cell analysis are also providing opportunities to explore both spatial and temporal landscapes. Notably, many basic biological processes have been studied capturing mechanistic detail with the goal to understand cellular proliferation and differentiation, gene regulation, morphogenesis, metabolism, and cell-cell communication. Similarly, at the intracellular level, addressing functions such as self-assembly, phase separation, and transport is leading to insights not readily understood as linear pathways. Therefore, network-based mathematical modeling, delineating dynamic biochemical reactions through ordinary and partial differential equations, promises to discover emergent biological properties not heretofore expected.


Encyclopedia of Cell Biology

Encyclopedia of Cell Biology

Author:

Publisher: Academic Press

Published: 2015-08-07

Total Pages: 2972

ISBN-13: 0123947960

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The Encyclopedia of Cell Biology, Four Volume Set offers a broad overview of cell biology, offering reputable, foundational content for researchers and students across the biological and medical sciences. This important work includes 285 articles from domain experts covering every aspect of cell biology, with fully annotated figures, abundant illustrations, videos, and references for further reading. Each entry is built with a layered approach to the content, providing basic information for those new to the area and more detailed material for the more experienced researcher. With authored contributions by experts in the field, the Encyclopedia of Cell Biology provides a fully cross-referenced, one-stop resource for students, researchers, and teaching faculty across the biological and medical sciences. Fully annotated color images and videos for full comprehension of concepts, with layered content for readers from different levels of experience Includes information on cytokinesis, cell biology, cell mechanics, cytoskeleton dynamics, stem cells, prokaryotic cell biology, RNA biology, aging, cell growth, cell Injury, and more In-depth linking to Academic Press/Elsevier content and additional links to outside websites and resources for further reading A one-stop resource for students, researchers, and teaching faculty across the biological and medical sciences


Systems Medicine

Systems Medicine

Author:

Publisher: Academic Press

Published: 2020-08-24

Total Pages: 1571

ISBN-13: 0128160780

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Technological advances in generated molecular and cell biological data are transforming biomedical research. Sequencing, multi-omics and imaging technologies are likely to have deep impact on the future of medical practice. In parallel to technological developments, methodologies to gather, integrate, visualize and analyze heterogeneous and large-scale data sets are needed to develop new approaches for diagnosis, prognosis and therapy. Systems Medicine: Integrative, Qualitative and Computational Approaches is an innovative, interdisciplinary and integrative approach that extends the concept of systems biology and the unprecedented insights that computational methods and mathematical modeling offer of the interactions and network behavior of complex biological systems, to novel clinically relevant applications for the design of more successful prognostic, diagnostic and therapeutic approaches. This 3 volume work features 132 entries from renowned experts in the fields and covers the tools, methods, algorithms and data analysis workflows used for integrating and analyzing multi-dimensional data routinely generated in clinical settings with the aim of providing medical practitioners with robust clinical decision support systems. Importantly the work delves into the applications of systems medicine in areas such as tumor systems biology, metabolic and cardiovascular diseases as well as immunology and infectious diseases amongst others. This is a fundamental resource for biomedical students and researchers as well as medical practitioners who need to need to adopt advances in computational tools and methods into the clinical practice. Encyclopedic coverage: ‘one-stop’ resource for access to information written by world-leading scholars in the field of Systems Biology and Systems Medicine, with easy cross-referencing of related articles to promote understanding and further research Authoritative: the whole work is authored and edited by recognized experts in the field, with a range of different expertise, ensuring a high quality standard Digitally innovative: Hyperlinked references and further readings, cross-references and diagrams/images will allow readers to easily navigate a wealth of information