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.

Towards a Theory of Development
Towards a Theory of Development

Author: Alessandro Minelli

Publisher: Oxford University Press, USA

Published: 2014

Total Pages: 299

ISBN-13: 0199671435

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Is it possible to explain and predict the development of living things? What is development? Articulate answers to these seemingly innocuous questions are far from straightforward. To date, no systematic, targeted effort has been made to construct a unifying theory of development. This novel work offers a unique exploration of the foundations of ontogeny by asking how the development of living things should be understood. It explores the key concepts of developmental biology, asks whether general principles of development can be discovered, and examines the role of models and theories. The two editors (one a biologist with long interest in the theoretical aspects of his discipline, the other a philosopher of science who has mainly worked on biological systems) have assembled a team of leading contributors who are representative of the scientific and philosophical community within which a diversity of thoughts are growing, and out of which a theory of development may eventually emerge. They analyse a wealth of approaches to concepts, models and theories of development, such as gene regulatory networks, accounts based on systems biology and on physics of soft matter, the different articulations of evolution and development, symbiont-induced development, as well as the widely discussed concepts of positional information and morphogenetic field, the idea of a 'programme' of development and its critiques, and the long-standing opposition between preformationist and epigenetic conceptions of development. Towards a Theory of Development is primarily aimed at students and researchers in the fields of 'evo-devo', developmental biology, theoretical biology, systems biology, biophysics, and the philosophy of science.

The Individual Microbe: Single-Cell Analysis and Agent-Based Modelling
The Individual Microbe: Single-Cell Analysis and Agent-Based Modelling

Author: Johan H. J. Leveau

Publisher: Frontiers Media SA

Published: 2019-02-19

Total Pages: 187

ISBN-13: 2889457494

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Recent technological advances in single-cell microbiology, using flow cytometry, microfluidics, x-ray fluorescence microprobes, and single-cell -omics, allow for the observation of individuals within populations. Simultaneously, individual-based models (or more generally agent-based models) allow for individual microbes to be simulated. Bridging these techniques forms the foundation of individual-based ecology of microbes (µIBE). µIBE has elucidated genetic and phenotypic heterogeneity that has important consequences for a number of human interests, including antibiotic or biocide resistance, the productivity and stability of industrial fermentations, the efficacy of food preservatives, and the potential of pathogens to cause disease. Individual-based models can help us to understand how these sets of traits of individual microbes influence the above. This eBook compiles all publications from a recent Research Topic in Frontiers in Microbiology. It features recent research where individual observational and/or modelling techniques are applied to gain unique insights into the ecology of microorganisms. The Research Topic “The Individual Microbe: Single-Cell Analysis and Agent-Based Modelling” arose from the 2016 @ASM conference of the same name hosted by the American Society for Microbiology at its headquarters in Washington, D.C. We are grateful to ASM for funding and hosting this conference.

Computational Biology for Stem Cell Research
Computational Biology for Stem Cell Research

Author: Pawan Raghav

Publisher: Elsevier

Published: 2024-01-12

Total Pages: 568

ISBN-13: 0443132216

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Computational Biology for Stem Cell Research is an invaluable guide for researchers as they explore HSCs and MSCs in computational biology. With the growing advancement of technology in the field of biomedical sciences, computational approaches have reduced the financial and experimental burden of the experimental process. In the shortest span, it has established itself as an integral component of any biological research activity. HSC informatics (in silico) techniques such as machine learning, genome network analysis, data mining, complex genome structures, docking, system biology, mathematical modeling, programming (R, Python, Perl, etc.) help to analyze, visualize, network constructions, and protein-ligand or protein-protein interactions. This book is aimed at beginners with an exact correlation between the biomedical sciences and in silico computational methods for HSCs transplantation and translational research and provides insights into methods targeting HSCs properties like proliferation, self-renewal, differentiation, and apoptosis. - Modeling Stem Cell Behavior: Explore stem cell behavior through animal models, bridging laboratory studies to real-world clinical allogeneic HSC transplantation (HSCT) scenarios. - Bioinformatics-Driven Translational Research: Navigate a path from bench to bedside with cutting-edge bioinformatics approaches, translating computational insights into tangible advancements in stem cell research and medical applications. - Interdisciplinary Resource: Discover a single comprehensive resource catering to biomedical sciences, life sciences, and chemistry fields, offering essential insights into computational tools vital for modern research.

Principles of Tissue Engineering
Principles of Tissue Engineering

Author: Robert Lanza

Publisher: Academic Press

Published: 2020-03-26

Total Pages: 1679

ISBN-13: 0128214015

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Now in its fifth edition, Principles of Tissue Engineering has been the definite resource in the field of tissue engineering for more than a decade. The fifth edition provides an update on this rapidly progressing field, combining the prerequisites for a general understanding of tissue growth and development, the tools and theoretical information needed to design tissues and organs, as well as a presentation by the world's experts of what is currently known about each specific organ system. As in previous editions, this book creates a comprehensive work that strikes a balance among the diversity of subjects that are related to tissue engineering, including biology, chemistry, material science, and engineering, among others, while also emphasizing those research areas that are likely to be of clinical value in the future. This edition includes greatly expanded focus on stem cells, including induced pluripotent stem (iPS) cells, stem cell niches, and blood components from stem cells. This research has already produced applications in disease modeling, toxicity testing, drug development, and clinical therapies. This up-to-date coverage of stem cell biology and the application of tissue-engineering techniques for food production – is complemented by a series of new and updated chapters on recent clinical experience in applying tissue engineering, as well as a new section on the emerging technologies in the field. - Organized into twenty-three parts, covering the basics of tissue growth and development, approaches to tissue and organ design, and a summary of current knowledge by organ system - Introduces a new section and chapters on emerging technologies in the field - Full-color presentation throughout

Systems Biology of Cell Signaling
Systems Biology of Cell Signaling

Author: Zhike Zi

Publisher: Frontiers Media SA

Published: 2022-02-17

Total Pages: 224

ISBN-13: 2889742814

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Topic Editor Prof. Xing is in collaboration with ATCC (https://www.atcc.org/) on testing some of their cell lines in research. All other Topic Editors declare no competing interests with regards to the Research Topic subject.