Introduction To Computational Genomics
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Computational Genomics With R
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Author : Altuna Akalin
language : en
Publisher: CRC Press
Release Date : 2020-12-16
Computational Genomics With R written by Altuna Akalin and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2020-12-16 with Mathematics categories.
Computational Genomics with R provides a starting point for beginners in genomic data analysis and also guides more advanced practitioners to sophisticated data analysis techniques in genomics. The book covers topics from R programming, to machine learning and statistics, to the latest genomic data analysis techniques. The text provides accessible information and explanations, always with the genomics context in the background. This also contains practical and well-documented examples in R so readers can analyze their data by simply reusing the code presented. As the field of computational genomics is interdisciplinary, it requires different starting points for people with different backgrounds. For example, a biologist might skip sections on basic genome biology and start with R programming, whereas a computer scientist might want to start with genome biology. After reading: You will have the basics of R and be able to dive right into specialized uses of R for computational genomics such as using Bioconductor packages. You will be familiar with statistics, supervised and unsupervised learning techniques that are important in data modeling, and exploratory analysis of high-dimensional data. You will understand genomic intervals and operations on them that are used for tasks such as aligned read counting and genomic feature annotation. You will know the basics of processing and quality checking high-throughput sequencing data. You will be able to do sequence analysis, such as calculating GC content for parts of a genome or finding transcription factor binding sites. You will know about visualization techniques used in genomics, such as heatmaps, meta-gene plots, and genomic track visualization. You will be familiar with analysis of different high-throughput sequencing data sets, such as RNA-seq, ChIP-seq, and BS-seq. You will know basic techniques for integrating and interpreting multi-omics datasets. Altuna Akalin is a group leader and head of the Bioinformatics and Omics Data Science Platform at the Berlin Institute of Medical Systems Biology, Max Delbrück Center, Berlin. He has been developing computational methods for analyzing and integrating large-scale genomics data sets since 2002. He has published an extensive body of work in this area. The framework for this book grew out of the yearly computational genomics courses he has been organizing and teaching since 2015.
Computational Genome Analysis
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Author : Richard C. Deonier
language : en
Publisher: Springer Science & Business Media
Release Date : 2005-12-27
Computational Genome Analysis written by Richard C. Deonier and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2005-12-27 with Computers categories.
This book presents the foundations of key problems in computational molecular biology and bioinformatics. It focuses on computational and statistical principles applied to genomes, and introduces the mathematics and statistics that are crucial for understanding these applications. The book features a free download of the R software statistics package and the text provides great crossover material that is interesting and accessible to students in biology, mathematics, statistics and computer science. More than 100 illustrations and diagrams reinforce concepts and present key results from the primary literature. Exercises are given at the end of chapters.
Introduction To Computational Biology
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Author : Bernhard Haubold
language : en
Publisher: Springer Science & Business Media
Release Date : 2006-08-09
Introduction To Computational Biology written by Bernhard Haubold and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-08-09 with Science categories.
Written with the advanced undergraduate in mind, this book introduces into the field of Bioinformatics. The authors explain the computational and conceptional background to the analysis of large-scale sequence data. Many of the corresponding analysis methods are rooted in evolutionary thinking, which serves as a common thread throughout the book. The focus is on methods of comparative genomics and subjects covered include: alignments, gene finding, phylogeny, and the analysis of single nucleotide polymorphisms (SNPs). The volume contains exercises, questions & answers to selected problems.
Introduction To Computational Metagenomics
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Author : Zhong Wang
language : en
Publisher: World Scientific Publishing Company
Release Date : 2022
Introduction To Computational Metagenomics written by Zhong Wang and has been published by World Scientific Publishing Company this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022 with Science categories.
This solutions manual is a companion to the workbook, Practical Numerical Mathematics with MATLAB: A workbook. It is intended for use by individual students independently studying the workbook and provides complete MATLAB code and numerical results for each of the exercises in the workbook and will be especially useful for those students without previous MATLAB programming experience. It is also valuable for classroom instructors to help pinpoint the author's intent in each exercise and to provide a model for graders.
Introduction To Computational Genomics
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Author : Nello Cristianini
language : en
Publisher: Cambridge University Press
Release Date : 2006-12-14
Introduction To Computational Genomics written by Nello Cristianini and has been published by Cambridge University Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006-12-14 with Computers categories.
Where did SARS come from? Have we inherited genes from Neanderthals? How do plants use their internal clock? The genomic revolution in biology enables us to answer such questions. But the revolution would have been impossible without the support of powerful computational and statistical methods that enable us to exploit genomic data. Many universities are introducing courses to train the next generation of bioinformaticians: biologists fluent in mathematics and computer science, and data analysts familiar with biology. This readable and entertaining book, based on successful taught courses, provides a roadmap to navigate entry to this field. It guides the reader through key achievements of bioinformatics, using a hands-on approach. Statistical sequence analysis, sequence alignment, hidden Markov models, gene and motif finding and more, are introduced in a rigorous yet accessible way. A companion website provides the reader with Matlab-related software tools for reproducing the steps demonstrated in the book.
Computational Exome And Genome Analysis
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Author : Peter N. Robinson
language : en
Publisher: CRC Press
Release Date : 2017-09-13
Computational Exome And Genome Analysis written by Peter N. Robinson and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2017-09-13 with Computers categories.
Exome and genome sequencing are revolutionizing medical research and diagnostics, but the computational analysis of the data has become an extremely heterogeneous and often challenging area of bioinformatics. Computational Exome and Genome Analysis provides a practical introduction to all of the major areas in the field, enabling readers to develop a comprehensive understanding of the sequencing process and the entire computational analysis pipeline.
Foundations Of Comparative Genomics
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Author : Arcady R. Mushegian
language : en
Publisher: Elsevier
Release Date : 2010-07-20
Foundations Of Comparative Genomics written by Arcady R. Mushegian and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2010-07-20 with Science categories.
This book provides an overview of computational analysis of genes and genomes, and of some most notable findings that come out of this work. Foundations of Comparative Genomics presents a historical perspective, beginning with early analysis of individual gene sequences, to present day comparison of gene repertoires encoded by completely sequenced genomes. The author discusses the underlying scientific principles of comparative genomics, argues that completion of many genome sequences started a new era in biology, and provides a personal view on several state-of-the-art issues, such as systems biology and whole-genome phylogenetic reconstructions. This book is an essential reference for researchers and students in computational biology, evolutionary biology, and genetics. - Presents an historic overview of genome biology and its achievements - Includes topics not covered in other books such as minimal and ancestral genomes - Discusses the evolutionary resilience of protein-coding genes and frequent functional convergence at the molecular level - Critically reviews horizontal gene transfer and other contentious issues - Covers comparative virology as a somewhat overlooked foundation of modern genome science
Computing For Comparative Microbial Genomics
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Author : David Wayne Ussery
language : en
Publisher: Springer Science & Business Media
Release Date : 2009-02-26
Computing For Comparative Microbial Genomics written by David Wayne Ussery and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-02-26 with Science categories.
Overview and Goals This book describes how to visualize and compare bacterial genomes. Sequencing technologies are becoming so inexpensive that soon going for a cup of coffee will be more expensive than sequencing a bacterial genome. Thus, there is a very real and pressing need for high-throughput computational methods to compare hundreds and thousands of bacterial genomes. It is a long road from molecular biology to systems biology, and in a sense this text can be thought of as a path bridging these ? elds. The goal of this book is to p- vide a coherent set of tools and a methodological framework for starting with raw DNA sequences and producing fully annotated genome sequences, and then using these to build up and test models about groups of interacting organisms within an environment or ecological niche. Organization and Features The text is divided into four main parts: Introduction, Comparative Genomics, Transcriptomics and Proteomics, and ? nally Microbial Communities. The ? rst ? ve chapters are introductions of various sorts. Each of these chapters represents an introduction to a speci? c scienti? c ? eld, to bring all readers up to the same basic level before proceeding on to the methods of comparing genomes. First, a brief overview of molecular biology and of the concept of sequences as biological inf- mation are given.
Bioinformatics And Computational Biology
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Author : Basant K. Tiwary
language : en
Publisher:
Release Date : 2022
Bioinformatics And Computational Biology written by Basant K. Tiwary and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022 with categories.
This textbook introduces fundamental concepts of bioinformatics and computational biology to the students and researchers in biology, medicine, veterinary science, agriculture, and bioengineering . The respective chapters provide detailed information on biological databases, sequence alignment, molecular evolution, next-generation sequencing, systems biology, and statistical computing using R. The book also presents a case-based discussion on clinical, veterinary, agricultural bioinformatics, and computational bioengineering for application-based learning in the respective fields. Further, it offers readers guidance on reconstructing and analysing biological networks and highlights computational methods used in systems medicine and genome-wide association mapping of diseases. Given its scope, this textbook offers an essential introductory book on bioinformatics and computational biology for undergraduate and graduate students in the life sciences, botany, zoology, physiology, biotechnology, bioinformatics, and genomic science as well as systems biology, bioengineering and the agricultural, and veterinary sciences.
Introduction To Computational Genomics
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Author : Nello Cristianini
language : en
Publisher:
Release Date : 2006
Introduction To Computational Genomics written by Nello Cristianini and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2006 with categories.