Topological Data Analysis for Genomics and Evolution

Topological Data Analysis for Genomics and Evolution PDF

Author: Raul Rabadan

Publisher: Cambridge University Press

Published: 2019-12-19

Total Pages: 522

ISBN-13: 1108757499

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Biology has entered the age of Big Data. A technical revolution has transformed the field, and extracting meaningful information from large biological data sets is now a central methodological challenge. Algebraic topology is a well-established branch of pure mathematics that studies qualitative descriptors of the shape of geometric objects. It aims to reduce comparisons of shape to a comparison of algebraic invariants, such as numbers, which are typically easier to work with. Topological data analysis is a rapidly developing subfield that leverages the tools of algebraic topology to provide robust multiscale analysis of data sets. This book introduces the central ideas and techniques of topological data analysis and its specific applications to biology, including the evolution of viruses, bacteria and humans, genomics of cancer, and single cell characterization of developmental processes. Bridging two disciplines, the book is for researchers and graduate students in genomics and evolutionary biology as well as mathematicians interested in applied topology.

Computational Topology for Data Analysis

Computational Topology for Data Analysis PDF

Author: Tamal Krishna Dey

Publisher: Cambridge University Press

Published: 2022-03-10

Total Pages: 456

ISBN-13: 1009103199

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Topological data analysis (TDA) has emerged recently as a viable tool for analyzing complex data, and the area has grown substantially both in its methodologies and applicability. Providing a computational and algorithmic foundation for techniques in TDA, this comprehensive, self-contained text introduces students and researchers in mathematics and computer science to the current state of the field. The book features a description of mathematical objects and constructs behind recent advances, the algorithms involved, computational considerations, as well as examples of topological structures or ideas that can be used in applications. It provides a thorough treatment of persistent homology together with various extensions – like zigzag persistence and multiparameter persistence – and their applications to different types of data, like point clouds, triangulations, or graph data. Other important topics covered include discrete Morse theory, the Mapper structure, optimal generating cycles, as well as recent advances in embedding TDA within machine learning frameworks.

Data Analysis and Visualization in Genomics and Proteomics

Data Analysis and Visualization in Genomics and Proteomics PDF

Author: Francisco Azuaje

Publisher: John Wiley & Sons

Published: 2005-06-24

Total Pages: 284

ISBN-13: 0470094400

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Data Analysis and Visualization in Genomics and Proteomics is the first book addressing integrative data analysis and visualization in this field. It addresses important techniques for the interpretation of data originating from multiple sources, encoded in different formats or protocols, and processed by multiple systems. One of the first systematic overviews of the problem of biological data integration using computational approaches This book provides scientists and students with the basis for the development and application of integrative computational methods to analyse biological data on a systemic scale Places emphasis on the processing of multiple data and knowledge resources, and the combination of different models and systems

Adaptive Evolution of Genes and Genomes

Adaptive Evolution of Genes and Genomes PDF

Author: Austin L. Hughes

Publisher: Oxford University Press, USA

Published: 1999

Total Pages: 286

ISBN-13: 9780195116267

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It will be an invaluable tool for anyone interested or working in molecular or evolutionary biology, and for those studying the implications of our rapidly increasing knowledge of the genomes of organisms."--BOOK JACKET.

Essentials of Topology with Applications

Essentials of Topology with Applications PDF

Author: Steven G. Krantz

Publisher: CRC Press

Published: 2009-07-28

Total Pages: 422

ISBN-13: 1420089757

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Brings Readers Up to Speed in This Important and Rapidly Growing AreaSupported by many examples in mathematics, physics, economics, engineering, and other disciplines, Essentials of Topology with Applications provides a clear, insightful, and thorough introduction to the basics of modern topology. It presents the traditional concepts of topological

The Bunyaviridae

The Bunyaviridae PDF

Author: Richard M. Elliott

Publisher: Springer Science & Business Media

Published: 2013-06-29

Total Pages: 351

ISBN-13: 1489913645

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In this comprehensive reference, leading researchers examine the biology, molecular biology, and diseases of the Bunyaviridae, and provide up-to-date information on the genetic characterization and variations of this virus group. Chapters deal with the molecular biology of five genera: Bunyavirus, Hantavirus, Nairovirus, Phlebovirus, and Tospovirus. Chapters examine Bunyaviridae assembly and intracelluar protein transport as well as Bunyaviridae genetics. Contributors discuss the Bunyaviridae diseases, including the hantavirus pulmonary syndrome.

Introduction to Computational Biology

Introduction to Computational Biology PDF

Author: Michael S. Waterman

Publisher: CRC Press

Published: 2018-05-02

Total Pages: 248

ISBN-13: 1351437089

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Biology is in the midst of a era yielding many significant discoveries and promising many more. Unique to this era is the exponential growth in the size of information-packed databases. Inspired by a pressing need to analyze that data, Introduction to Computational Biology explores a new area of expertise that emerged from this fertile field- the combination of biological and information sciences. This introduction describes the mathematical structure of biological data, especially from sequences and chromosomes. After a brief survey of molecular biology, it studies restriction maps of DNA, rough landmark maps of the underlying sequences, and clones and clone maps. It examines problems associated with reading DNA sequences and comparing sequences to finding common patterns. The author then considers that statistics of pattern counts in sequences, RNA secondary structure, and the inference of evolutionary history of related sequences. Introduction to Computational Biology exposes the reader to the fascinating structure of biological data and explains how to treat related combinatorial and statistical problems. Written to describe mathematical formulation and development, this book helps set the stage for even more, truly interdisciplinary work in biology.

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