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Author: Veli Mäkinen
Publisher: Cambridge University Press
ISBN: 1009341219
Category : Computers
Languages : en
Pages : 470
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Book Description
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.
Author: Veli Mäkinen
Publisher: Cambridge University Press
ISBN: 1009341219
Category : Computers
Languages : en
Pages : 470
Get Book Here
Book Description
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.
Author: Veli Mäkinen
Publisher: Cambridge University Press
ISBN: 1316342948
Category : Science
Languages : en
Pages : 415
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Book Description
High-throughput sequencing has revolutionised the field of biological sequence analysis. Its application has enabled researchers to address important biological questions, often for the first time. This book provides an integrated presentation of the fundamental algorithms and data structures that power modern sequence analysis workflows. The topics covered range from the foundations of biological sequence analysis (alignments and hidden Markov models), to classical index structures (k-mer indexes, suffix arrays and suffix trees), Burrows–Wheeler indexes, graph algorithms and a number of advanced omics applications. The chapters feature numerous examples, algorithm visualisations, exercises and problems, each chosen to reflect the steps of large-scale sequencing projects, including read alignment, variant calling, haplotyping, fragment assembly, alignment-free genome comparison, transcript prediction and analysis of metagenomic samples. Each biological problem is accompanied by precise formulations, providing graduate students and researchers in bioinformatics and computer science with a powerful toolkit for the emerging applications of high-throughput sequencing.
Author: Veli Mäkinen
Publisher: Cambridge University Press
ISBN: 1009341235
Category : Computers
Languages : en
Pages : 469
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Book Description
The fundamental algorithms and data structures that power standard bioscience workflows, with rigorous computer science formulations.
Author: Richard Durbin
Publisher: Cambridge University Press
ISBN: 113945739X
Category : Science
Languages : en
Pages : 372
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Book Description
Probabilistic models are becoming increasingly important in analysing the huge amount of data being produced by large-scale DNA-sequencing efforts such as the Human Genome Project. For example, hidden Markov models are used for analysing biological sequences, linguistic-grammar-based probabilistic models for identifying RNA secondary structure, and probabilistic evolutionary models for inferring phylogenies of sequences from different organisms. This book gives a unified, up-to-date and self-contained account, with a Bayesian slant, of such methods, and more generally to probabilistic methods of sequence analysis. Written by an interdisciplinary team of authors, it aims to be accessible to molecular biologists, computer scientists, and mathematicians with no formal knowledge of the other fields, and at the same time present the state-of-the-art in this new and highly important field.
Author: Steven S Skiena
Publisher: Springer Science & Business Media
ISBN: 1848000707
Category : Computers
Languages : en
Pages : 742
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Book Description
This newly expanded and updated second edition of the best-selling classic continues to take the "mystery" out of designing algorithms, and analyzing their efficacy and efficiency. Expanding on the first edition, the book now serves as the primary textbook of choice for algorithm design courses while maintaining its status as the premier practical reference guide to algorithms for programmers, researchers, and students. The reader-friendly Algorithm Design Manual provides straightforward access to combinatorial algorithms technology, stressing design over analysis. The first part, Techniques, provides accessible instruction on methods for designing and analyzing computer algorithms. The second part, Resources, is intended for browsing and reference, and comprises the catalog of algorithmic resources, implementations and an extensive bibliography. NEW to the second edition: • Doubles the tutorial material and exercises over the first edition • Provides full online support for lecturers, and a completely updated and improved website component with lecture slides, audio and video • Contains a unique catalog identifying the 75 algorithmic problems that arise most often in practice, leading the reader down the right path to solve them • Includes several NEW "war stories" relating experiences from real-world applications • Provides up-to-date links leading to the very best algorithm implementations available in C, C++, and Java
Author: Phillip Compeau
Publisher:
ISBN: 9780990374633
Category :
Languages : en
Pages :
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Book Description
Bioinformatics Algorithms: an Active Learning Approach is one of the first textbooks to emerge from the recent Massive Online Open Course (MOOC) revolution. A light-hearted and analogy-filled companion to the authors' acclaimed online course (http://coursera.org/course/bioinformatics), this book presents students with a dynamic approach to learning bioinformatics. It strikes a unique balance between practical challenges in modern biology and fundamental algorithmic ideas, thus capturing the interest of students of biology and computer science students alike.Each chapter begins with a central biological question, such as "Are There Fragile Regions in the Human Genome?" or "Which DNA Patterns Play the Role of Molecular Clocks?" and then steadily develops the algorithmic sophistication required to answer this question. Hundreds of exercises are incorporated directly into the text as soon as they are needed; readers can test their knowledge through automated coding challenges on Rosalind (http://rosalind.info), an online platform for learning bioinformatics.The textbook website (http://bioinformaticsalgorithms.org) directs readers toward additional educational materials, including video lectures and PowerPoint slides.
Author: Mohammad Yaseen Sofi
Publisher: Academic Press
ISBN: 0323911293
Category : Medical
Languages : en
Pages : 268
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Book Description
Bioinformatics for Everyone provides a brief overview on currently used technologies in the field of bioinformatics—interpreted as the application of information science to biology— including various online and offline bioinformatics tools and softwares. The book presents valuable knowledge in a simplified way to help students and researchers easily apply bioinformatics tools and approaches to their research and lab routines. Several protocols and case studies that can be reproduced by readers to suit their needs are also included. - Explains the most relevant bioinformatics tools available in a didactic manner so that readers can easily apply them to their research - Includes several protocols that can be used in different types of research work or in lab routines - Discusses upcoming technologies and their impact on biological/biomedical sciences
Author: David Liben-Nowell
Publisher: Cambridge University Press
ISBN: 1009174746
Category : Computers
Languages : en
Pages : 694
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Book Description
Computer science majors taking a non-programming-based course like discrete mathematics might ask 'Why do I need to learn this?' Written with these students in mind, this text introduces the mathematical foundations of computer science by providing a comprehensive treatment of standard technical topics while simultaneously illustrating some of the broad-ranging applications of that material throughout the field. Chapters on core topics from discrete structures – like logic, proofs, number theory, counting, probability, graphs – are augmented with around 60 'computer science connections' pages introducing their applications: for example, game trees (logic), triangulation of scenes in computer graphics (induction), the Enigma machine (counting), algorithmic bias (relations), differential privacy (probability), and paired kidney transplants (graphs). Pedagogical features include 'Why You Might Care' sections, quick-reference chapter guides and key terms and results summaries, problem-solving and writing tips, 'Taking it Further' asides with more technical details, and around 1700 exercises, 435 worked examples, and 480 figures.
Author: Alvaro R. Lara
Publisher: Springer Nature
ISBN: 3030318974
Category : Science
Languages : en
Pages : 233
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Book Description
This book provides a comprehensive overview of the design, generation and characterization of minimal cell systems. Written by leading experts, it presents an in-depth analysis of the current issues and challenges in the field, including recent advances in the generation and characterization of reduced-genome strains generated from model organisms with relevance in biotechnology, and basic research such as Escherichia coli, Corynebacterium glutamicum and yeast. It also discusses methodologies, such as bottom-up and top-down genome minimization strategies, as well as novel analytical and experimental approaches to characterize and generate minimal cells. Lastly, it presents the latest research related to minimal cells of serveral microorganisms, e.g. Bacillus subtilis. The design of biological systems for biotechnological purposes employs strategies aimed at optimizing specific tasks. This approach is based on enhancing certain biological functions while reducing other capacities that are not required or that could be detrimental to the desired objective. A highly optimized cell factory would be expected to have only the capacity for reproduction and for performing the expected task. Such a hypothetical organism would be considered a minimal cell. At present, numerous research groups in academia and industry are exploring the theoretical and practical implications of constructing and using minimal cells and are providing valuable fundamental insights into the characteristics of minimal genomes, leading to an understanding of the essential gene set. In addition, research in this field is providing valuable information on the physiology of minimal cells and their utilization as a biological chassis to which useful biotechnological functions can be added.
Author: Neil C. Jones
Publisher: MIT Press
ISBN: 9780262101066
Category : Computers
Languages : en
Pages : 460
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Book Description
An introductory text that emphasizes the underlying algorithmic ideas that are driving advances in bioinformatics. This introductory text offers a clear exposition of the algorithmic principles driving advances in bioinformatics. Accessible to students in both biology and computer science, it strikes a unique balance between rigorous mathematics and practical techniques, emphasizing the ideas underlying algorithms rather than offering a collection of apparently unrelated problems. The book introduces biological and algorithmic ideas together, linking issues in computer science to biology and thus capturing the interest of students in both subjects. It demonstrates that relatively few design techniques can be used to solve a large number of practical problems in biology, and presents this material intuitively. An Introduction to Bioinformatics Algorithms is one of the first books on bioinformatics that can be used by students at an undergraduate level. It includes a dual table of contents, organized by algorithmic idea and biological idea; discussions of biologically relevant problems, including a detailed problem formulation and one or more solutions for each; and brief biographical sketches of leading figures in the field. These interesting vignettes offer students a glimpse of the inspirations and motivations for real work in bioinformatics, making the concepts presented in the text more concrete and the techniques more approachable.PowerPoint presentations, practical bioinformatics problems, sample code, diagrams, demonstrations, and other materials can be found at the Author's website.
