Download or read book Sequences and the de Bruijn Graph written by Tuvi Etzion and published by Elsevier. This book was released on 2024-02-29 with total page 484 pages. Available in PDF, EPUB and Kindle. Book excerpt: The de Bruijn graph was defined in 1949 to enumerate the number of closed sequences where each n-tuple appears exactly once as a window in a sequence. Through the years, the graph and its sequences have found numerous applications – in space technology, wireless communication, cryptography, parallel computation, genome assembly, DNA storage, and microbiome research, among others. Sequences and the de Bruijn Graph: Properties, Constructions, and Applications explores the foundations of theoretical mathematical concepts and the important applications to computer science, electrical engineering, and bioinformatics. The book introduces the various concepts, ideas, and techniques associated with the use of the de Bruijn Graph, providing comprehensive coverage of sequence classification, one-dimensional and two-dimensional applications, graphs, interconnected networks, layouts, and embedded systems. Researchers, graduate students, professors, and professionals working in the fields of applied mathematics, electrical engineering, computer science and bioinformatics will find this book useful. - Investigates computational and engineering applications associated with the de Bruijn graph, its sequences, and their generalization - Explores one-dimensional and two-dimensional sequences with special properties and their various properties and applications - Introduces the rich structure of the de Bruijn graph and its sequences, in both mathematical theory and its applications to computing and engineering problems
Download or read book Genome Scale Algorithm Design written by Veli Mäkinen and published by Cambridge University Press. This book was released on 2023-10-12 with total page 470 pages. Available in PDF, EPUB and Kindle. Book excerpt: Guided by standard bioscience workflows in high-throughput sequencing analysis, this book for graduate students, researchers, and professionals in bioinformatics and computer science offers a unified presentation of genome-scale algorithms. This new edition covers the use of minimizers and other advanced data structures in pangenomics approaches.
Download or read book Algorithms in Bioinformatics written by Raffaele Giancarlo and published by Springer. This book was released on 2007-08-24 with total page 443 pages. Available in PDF, EPUB and Kindle. Book excerpt: The refereed proceedings from the 7th International Workshop on Algorithms in Bioinformatics are provided in this volume. Papers address current issues in algorithms in bioinformatics, ranging from mathematical tools to experimental studies of approximation algorithms to significant computational analyses. Biological problems examined include genetic mapping, sequence alignment and analysis, phylogeny, comparative genomics, and protein structure.
Download or read book Next Generation Sequencing written by Jerzy Kulski and published by BoD – Books on Demand. This book was released on 2016-01-14 with total page 466 pages. Available in PDF, EPUB and Kindle. Book excerpt: Next generation sequencing (NGS) has surpassed the traditional Sanger sequencing method to become the main choice for large-scale, genome-wide sequencing studies with ultra-high-throughput production and a huge reduction in costs. The NGS technologies have had enormous impact on the studies of structural and functional genomics in all the life sciences. In this book, Next Generation Sequencing Advances, Applications and Challenges, the sixteen chapters written by experts cover various aspects of NGS including genomics, transcriptomics and methylomics, the sequencing platforms, and the bioinformatics challenges in processing and analysing huge amounts of sequencing data. Following an overview of the evolution of NGS in the brave new world of omics, the book examines the advances and challenges of NGS applications in basic and applied research on microorganisms, agricultural plants and humans. This book is of value to all who are interested in DNA sequencing and bioinformatics across all fields of the life sciences.
Download or read book A Course in Combinatorics written by J. H. van Lint and published by Cambridge University Press. This book was released on 2001-11-22 with total page 620 pages. Available in PDF, EPUB and Kindle. Book excerpt: This is the second edition of a popular book on combinatorics, a subject dealing with ways of arranging and distributing objects, and which involves ideas from geometry, algebra and analysis. The breadth of the theory is matched by that of its applications, which include topics as diverse as codes, circuit design and algorithm complexity. It has thus become essential for workers in many scientific fields to have some familiarity with the subject. The authors have tried to be as comprehensive as possible, dealing in a unified manner with, for example, graph theory, extremal problems, designs, colorings and codes. The depth and breadth of the coverage make the book a unique guide to the whole of the subject. The book is ideal for courses on combinatorical mathematics at the advanced undergraduate or beginning graduate level. Working mathematicians and scientists will also find it a valuable introduction and reference.
Download or read book Magical Mathematics written by Persi Diaconis and published by Princeton University Press. This book was released on 2015-10-13 with total page 258 pages. Available in PDF, EPUB and Kindle. Book excerpt: "Magical Mathematics reveals the secrets of amazing, fun-to-perform card tricks--and the profound mathematical ideas behind them--that will astound even the most accomplished magician. Persi Diaconis and Ron Graham provide easy, step-by-step instructions for each trick, explaining how to set up the effect and offering tips on what to say and do while performing it. Each card trick introduces a new mathematical idea, and varying the tricks in turn takes readers to the very threshold of today's mathematical knowledge. For example, the Gilbreath principle--a fantastic effect where the cards remain in control despite being shuffled--is found to share an intimate connection with the Mandelbrot set. Other card tricks link to the mathematical secrets of combinatorics, graph theory, number theory, topology, the Riemann hypothesis, and even Fermat's last theorem. Diaconis and Graham are mathematicians as well as skilled performers with decades of professional experience between them. In this book they share a wealth of conjuring lore, including some closely guarded secrets of legendary magicians. Magical Mathematics covers the mathematics of juggling and shows how the I Ching connects to the history of probability and magic tricks both old and new. It tells the stories--and reveals the best tricks--of the eccentric and brilliant inventors of mathematical magic. Magical Mathematics exposes old gambling secrets through the mathematics of shuffling cards, explains the classic street-gambling scam of three-card monte, traces the history of mathematical magic back to the thirteenth century and the oldest mathematical trick--and much more"-
Download or read book Bioinformatics in the Era of Post Genomics and Big Data written by Ibrokhim Y. Abdurakhmonov and published by BoD – Books on Demand. This book was released on 2018-06-20 with total page 190 pages. Available in PDF, EPUB and Kindle. Book excerpt: Bioinformatics has evolved significantly in the era of post genomics and big data. Huge advancements were made toward storing, handling, mining, comparing, extracting, clustering and analysis as well as visualization of big macromolecular data using novel computational approaches, machine and deep learning methods, and web-based server tools. There are extensively ongoing world-wide efforts to build the resources for regional hosting, organized and structured access and improving the pre-existing bioinformatics tools to efficiently and meaningfully analyze day-to-day increasing big data. This book intends to provide the reader with updates and progress on genomic data analysis, data modeling and network-based system tools.
Download or read book Algebraic Combinatorics written by Richard P. Stanley and published by Springer Science & Business Media. This book was released on 2013-06-17 with total page 226 pages. Available in PDF, EPUB and Kindle. Book excerpt: Written by one of the foremost experts in the field, Algebraic Combinatorics is a unique undergraduate textbook that will prepare the next generation of pure and applied mathematicians. The combination of the author’s extensive knowledge of combinatorics and classical and practical tools from algebra will inspire motivated students to delve deeply into the fascinating interplay between algebra and combinatorics. Readers will be able to apply their newfound knowledge to mathematical, engineering, and business models. The text is primarily intended for use in a one-semester advanced undergraduate course in algebraic combinatorics, enumerative combinatorics, or graph theory. Prerequisites include a basic knowledge of linear algebra over a field, existence of finite fields, and group theory. The topics in each chapter build on one another and include extensive problem sets as well as hints to selected exercises. Key topics include walks on graphs, cubes and the Radon transform, the Matrix–Tree Theorem, and the Sperner property. There are also three appendices on purely enumerative aspects of combinatorics related to the chapter material: the RSK algorithm, plane partitions, and the enumeration of labeled trees. Richard Stanley is currently professor of Applied Mathematics at the Massachusetts Institute of Technology. Stanley has received several awards including the George Polya Prize in applied combinatorics, the Guggenheim Fellowship, and the Leroy P. Steele Prize for mathematical exposition. Also by the author: Combinatorics and Commutative Algebra, Second Edition, © Birkhauser.
Download or read book Proofs from THE BOOK written by Martin Aigner and published by Springer Science & Business Media. This book was released on 2013-06-29 with total page 194 pages. Available in PDF, EPUB and Kindle. Book excerpt: According to the great mathematician Paul Erdös, God maintains perfect mathematical proofs in The Book. This book presents the authors candidates for such "perfect proofs," those which contain brilliant ideas, clever connections, and wonderful observations, bringing new insight and surprising perspectives to problems from number theory, geometry, analysis, combinatorics, and graph theory. As a result, this book will be fun reading for anyone with an interest in mathematics.
Download or read book Algebraic Shift Register Sequences written by Mark Goresky and published by Cambridge University Press. This book was released on 2012-02-02 with total page 515 pages. Available in PDF, EPUB and Kindle. Book excerpt: Describes the design, mathematical analysis and implementation of pseudo-random sequences for applications in communications, cryptography and simulations.
Download or read book Digraphs written by Jorgen Bang-Jensen and published by Springer Science & Business Media. This book was released on 2013-06-29 with total page 769 pages. Available in PDF, EPUB and Kindle. Book excerpt: The study of directed graphs (digraphs) has developed enormously over recent decades, yet the results are rather scattered across the journal literature. This is the first book to present a unified and comprehensive survey of the subject. In addition to covering the theoretical aspects, the authors discuss a large number of applications and their generalizations to topics such as the traveling salesman problem, project scheduling, genetics, network connectivity, and sparse matrices. Numerous exercises are included. For all graduate students, researchers and professionals interested in graph theory and its applications, this book will be essential reading.
Download or read book Algorithms on Strings Trees and Sequences written by Dan Gusfield and published by Cambridge University Press. This book was released on 1997-05-28 with total page 556 pages. Available in PDF, EPUB and Kindle. Book excerpt: String algorithms are a traditional area of study in computer science. In recent years their importance has grown dramatically with the huge increase of electronically stored text and of molecular sequence data (DNA or protein sequences) produced by various genome projects. This book is a general text on computer algorithms for string processing. In addition to pure computer science, the book contains extensive discussions on biological problems that are cast as string problems, and on methods developed to solve them. It emphasises the fundamental ideas and techniques central to today's applications. New approaches to this complex material simplify methods that up to now have been for the specialist alone. With over 400 exercises to reinforce the material and develop additional topics, the book is suitable as a text for graduate or advanced undergraduate students in computer science, computational biology, or bio-informatics. Its discussion of current algorithms and techniques also makes it a reference for professionals.
Download or read book The Ultimate Challenge written by Jeffrey C. Lagarias and published by American Mathematical Society. This book was released on 2023-04-19 with total page 360 pages. Available in PDF, EPUB and Kindle. Book excerpt: The $3x+1$ problem, or Collatz problem, concerns the following seemingly innocent arithmetic procedure applied to integers: If an integer $x$ is odd then “multiply by three and add one”, while if it is even then “divide by two”. The $3x+1$ problem asks whether, starting from any positive integer, repeating this procedure over and over will eventually reach the number 1. Despite its simple appearance, this problem is unsolved. Generalizations of the problem are known to be undecidable, and the problem itself is believed to be extraordinarily difficult. This book reports on what is known on this problem. It consists of a collection of papers, which can be read independently of each other. The book begins with two introductory papers, one giving an overview and current status, and the second giving history and basic results on the problem. These are followed by three survey papers on the problem, relating it to number theory and dynamical systems, to Markov chains and ergodic theory, and to logic and the theory of computation. The next paper presents results on probabilistic models for behavior of the iteration. This is followed by a paper giving the latest computational results on the problem, which verify its truth for $x < 5.4 cdot 10^{18}$. The book also reprints six early papers on the problem and related questions, by L. Collatz, J. H. Conway, H. S. M. Coxeter, C. J. Everett, and R. K. Guy, each with editorial commentary. The book concludes with an annotated bibliography of work on the problem up to the year 2000.
Download or read book The Pangenome written by Hervé Tettelin and published by Springer Nature. This book was released on 2020-04-30 with total page 311 pages. Available in PDF, EPUB and Kindle. Book excerpt: This open access book offers the first comprehensive account of the pan-genome concept and its manifold implications. The realization that the genetic repertoire of a biological species always encompasses more than the genome of each individual is one of the earliest examples of big data in biology that opened biology to the unbounded. The study of genetic variation observed within a species challenges existing views and has profound consequences for our understanding of the fundamental mechanisms underpinning bacterial biology and evolution. The underlying rationale extends well beyond the initial prokaryotic focus to all kingdoms of life and evolves into similar concepts for metagenomes, phenomes and epigenomes. The book’s respective chapters address a range of topics, from the serendipitous emergence of the pan-genome concept and its impacts on the fields of microbiology, vaccinology and antimicrobial resistance, to the study of microbial communities, bioinformatic applications and mathematical models that tie in with complex systems and economic theory. Given its scope, the book will appeal to a broad readership interested in population dynamics, evolutionary biology and genomics.
Download or read book String Processing and Information Retrieval written by Nieves R. Brisaboa and published by Springer Nature. This book was released on 2019-10-05 with total page 537 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume constitutes the refereed proceedings of the 26th International Symposium on String Processing and Information Retrieval, SPIRE 2019, held in Segovia, Spain, in October 2019. The 28 full papers and 8 short papers presented in this volume were carefully reviewed and selected from 59 submissions. They cover topics such as: data compression; information retrieval; string algorithms; algorithms; computational biology; indexing and compression; and compressed data structures.
Download or read book Advances in Bioinformatics and Computational Biology written by João C. Setubal and published by Springer Nature. This book was released on 2020-12-19 with total page 284 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the Brazilian Symposium on Bioinformatics, BSB 2020, held in São Paulo, Brazil, in November 2020. Due to COVID-19 pandemic the conference was held virtually The 20 revised full papers and 5 short papers were carefully reviewed and selected from 45 submissions. The papers address a broad range of current topics in computational biology and bioinformatics.
Download or read book Algorithms in Bioinformatics written by Aaron Darling and published by Springer. This book was released on 2013-08-23 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book constitutes the refereed proceedings of the 13th International Workshop on Algorithms in Bioinformatics, WABI 2013, held in Sophia Antipolis, France, in September 2013. WABI 2013 is one of seven workshops which, along with the European Symposium on Algorithms (ESA), constitute the ALGO annual meeting and highlights research in algorithmic work for bioinformatics, computational biology and systems biology. The goal is to present recent research results, including significant work-in-progress, and to identify and explore directions of future research. The 27 full papers presented were carefully reviewed and selected from 61 submissions. The papers cover all aspects of algorithms in bioinformatics, computational biology and systems biology.
