Download or read book Sequence Evolution Function written by Eugene V. Koonin and published by Springer Science & Business Media. This book was released on 2013-06-29 with total page 482 pages. Available in PDF, EPUB and Kindle. Book excerpt: Sequence - Evolution - Function is an introduction to the computational approaches that play a critical role in the emerging new branch of biology known as functional genomics. The book provides the reader with an understanding of the principles and approaches of functional genomics and of the potential and limitations of computational and experimental approaches to genome analysis. Sequence - Evolution - Function should help bridge the "digital divide" between biologists and computer scientists, allowing biologists to better grasp the peculiarities of the emerging field of Genome Biology and to learn how to benefit from the enormous amount of sequence data available in the public databases. The book is non-technical with respect to the computer methods for genome analysis and discusses these methods from the user's viewpoint, without addressing mathematical and algorithmic details. Prior practical familiarity with the basic methods for sequence analysis is a major advantage, but a reader without such experience will be able to use the book as an introduction to these methods. This book is perfect for introductory level courses in computational methods for comparative and functional genomics.
Download or read book Comparative Genomics written by Joao Carlos Setubal and published by Humana. This book was released on 2024-06-22 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This second edition provides new and updated chapters covering computational and mathematical techniques and concepts related to the field of comparative genomics. The topics covered in the chapters range from those that address general techniques and concepts that apply to all organisms to others that are specialized and apply to specific biological systems such as viruses, bacteria, nematodes, and insects. Well-known comparative genomics web-based platforms are also covered in specific chapters. Written in the highly successful Methods in Molecular Biology series format, many chapters include introductions to their respective topics and step-by-step comparison procedures, demonstrated on actual sets of genome sequences. Authoritative and cutting-edge, Comparative Genomics: Methods and Protocols, Second Edition aims to ensure successful results in the further study of this vital field.
Download or read book Comparative Genomics written by James R. Brown and published by CRC Press. This book was released on 2007-12-03 with total page 409 pages. Available in PDF, EPUB and Kindle. Book excerpt: Through comparative analysis, the genomes of a number of species are providing a deeper understanding of the human genome. This is highly useful in drug research, especially in the treatment of otherwise intractable conditions. Compiling first-hand descriptions of the pioneering achievements of prominent researchers, this text focuses on revolutionary advances in DNA-sequencing technology, new approaches to the organization and analysis of large phylogenetic data sets, new perspectives on evolution, and the development of novel antimicrobial drugs. This seminal volume demonstrates both the means and the fruits of cooperation across a number of fields, and in doing so lays the groundwork for continued progress.
Download or read book Comparative Genomics written by Nicholas H. Bergman and published by Springer Science & Business Media. This book was released on 2007-11-29 with total page 436 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides a collection of robust protocols for molecular biologists studying comparative genomics. Given the tremendous increase in available biosequence data over the past ten years, this volume is timely, comprehensive, and novel. The volume is intended for molecular biologists, biochemists and geneticists.
Download or read book Handbook of Comparative Genomics written by Cecilia Saccone and published by John Wiley & Sons. This book was released on 2005-03-11 with total page 442 pages. Available in PDF, EPUB and Kindle. Book excerpt: This comprehensive reference covers the comparative methodologyinvolved in studying molecular evolution. Providing a practicalintroduction to the role of bioinformatics in comparative genomics,this publication further discusses the basic technology used ingenome sequencing projects and provides an overview of genomestorage databases currently in use. This timely and cutting-edge text also: Reviews the basic principles of genomics and gene expressionanalysis Discusses analytic methods in proteomics andtranscriptomics Includes a comprehensive list of Web resource
Download or read book Plant Comparative Genomics written by Alejandro Pereira-Santana and published by Springer Nature. This book was released on 2022-07-11 with total page 293 pages. Available in PDF, EPUB and Kindle. Book excerpt: This detailed book presents recent methodologies for the task of inspecting the genomic world of plants, extracting valuable information, and presenting it in a readable way. With a focus on bioinformatics tools, the volume explores phylogenetics and evolution, Omics analysis, as well as experimental procedures for trait characterization. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of vital expert implementation advice that will lead to successful results. Authoritative and practical, Plant Comparative Genomics serves as an ideal resource for researchers looking to implement comparative tools in order to explore their genomic data for their daily scientific work.
Download or read book Foundations of Comparative Genomics written by Arcady R. Mushegian and published by Elsevier. This book was released on 2010-07-20 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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
Download or read book Molecular Structure of Nucleic Acids written by and published by Ardent Media. This book was released on 1953 with total page 8 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Computing for Comparative Microbial Genomics written by David Wayne Ussery and published by Springer Science & Business Media. This book was released on 2009-02-26 with total page 272 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book The Barley Genome written by Nils Stein and published by Springer. This book was released on 2018-08-18 with total page 400 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents an overview of the state-of-the-art in barley genome analysis, covering all aspects of sequencing the genome and translating this important information into new knowledge in basic and applied crop plant biology and new tools for research and crop improvement. Unlimited access to a high-quality reference sequence is removing one of the major constraints in basic and applied research. This book summarizes the advanced knowledge of the composition of the barley genome, its genes and the much larger non-coding part of the genome, and how this information facilitates studying the specific characteristics of barley. One of the oldest domesticated crops, barley is the small grain cereal species that is best adapted to the highest altitudes and latitudes, and it exhibits the greatest tolerance to most abiotic stresses. With comprehensive access to the genome sequence, barley’s importance as a genetic model in comparative studies on crop species like wheat, rye, oats and even rice is likely to increase.
Download or read book Computational Genomics with R written by Altuna Akalin and published by CRC Press. This book was released on 2020-12-16 with total page 463 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book Comparative Genomics written by Nicholas H. Bergman and published by Humana Press. This book was released on 2007-11-29 with total page 568 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides a collection of robust protocols for molecular biologists studying comparative genomics. Given the tremendous increase in available biosequence data over the past ten years, this volume is timely, comprehensive, and novel. The volume is intended for molecular biologists, biochemists and geneticists.
Download or read book Advances in Animal Genomics written by Sukanta Mondal and published by Academic Press. This book was released on 2020-11-25 with total page 340 pages. Available in PDF, EPUB and Kindle. Book excerpt: Advances in Animal Genomics provides an outstanding collection of integrated strategies involving traditional and modern - omics (structural, functional, comparative and epigenomics) approaches and genomics-assisted breeding methods which animal biotechnologists can utilize to dissect and decode the molecular and gene regulatory networks involved in the complex quantitative yield and stress tolerance traits in livestock. Written by international experts on animal genomics, this book explores the recent advances in high-throughput, next-generation whole genome and transcriptome sequencing, array-based genotyping, and modern bioinformatics approaches which have enabled to produce huge genomic and transcriptomic resources globally on a genome-wide scale. This book is an important resource for researchers, students, educators and professionals in agriculture, veterinary and biotechnology sciences that enables them to solve problems regarding sustainable development with the help of current innovative biotechnologies. - Integrates basic and advanced concepts of animal biotechnology and presents future developments - Describes current high-throughput next-generation whole genome and transcriptome sequencing, array-based genotyping, and modern bioinformatics approaches for sustainable livestock production - Illustrates integrated strategies to dissect and decode the molecular and gene regulatory networks involved in complex quantitative yield and stress tolerance traits in livestock - Ensures readers will gain a strong grasp of biotechnology for sustainable livestock production with its well-illustrated discussion
Download or read book Introduction to Genomics written by Arthur Lesk and published by Oxford University Press, USA. This book was released on 2012 with total page 421 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book covers the latest techniques that enable us to study the genome in detail, the book explores what the genome tells us about life at the level of the molecule, the cell, and the organism
Download or read book Genetics and Genomics of the Brassicaceae written by Renate Schmidt and published by Springer Science & Business Media. This book was released on 2010-12-03 with total page 675 pages. Available in PDF, EPUB and Kindle. Book excerpt: The Genetics and Genomics of the Brassicaceae provides a review of this important family (commonly termed the mustard family, or Cruciferae). The family contains several cultivated species, including radish, rocket, watercress, wasabi and horseradish, in addition to the vegetable and oil crops of the Brassica genus. There are numerous further species with great potential for exploitation in 21st century agriculture, particularly as sources of bioactive chemicals. These opportunities are reviewed, in the context of the Brassicaceae in agriculture. More detailed descriptions are provided of the genetics of the cultivated Brassica crops, including both the species producing most of the brassica vegetable crops (B. rapa and B. oleracea) and the principal species producing oilseed crops (B. napus and B. juncea). The Brassicaceae also include important “model” plant species. Most prominent is Arabidopsis thaliana, the first plant species to have its genome sequenced. Natural genetic variation is reviewed for A. thaliana, as are the genetics of the closely related A. lyrata and of the genus Capsella. Self incompatibility is widespread in the Brassicaceae, and this subject is reviewed. Interest arising from both the commercial value of crop species of the Brassicaceae and the importance of Arabidopsis thaliana as a model species, has led to the development of numerous resources to support research. These are reviewed, including germplasm and genomic library resources, and resources for reverse genetics, metabolomics, bioinformatics and transformation. Molecular studies of the genomes of species of the Brassicaceae revealed extensive genome duplication, indicative of multiple polyploidy events during evolution. In some species, such as Brassica napus, there is evidence of multiple rounds of polyploidy during its relatively recent evolution, thus the Brassicaceae represent an excellent model system for the study of the impacts of polyploidy and the subsequent process of diploidisation, whereby the genome stabilises. Sequence-level characterization of the genomes of Arabidopsis thaliana and Brassica rapa are presented, along with summaries of comparative studies conducted at both linkage map and sequence level, and analysis of the structural and functional evolution of resynthesised polyploids, along with a description of the phylogeny and karyotype evolution of the Brassicaceae. Finally, some perspectives of the editors are presented. These focus upon the Brassicaceae species as models for studying genome evolution following polyploidy, the impact of advances in genome sequencing technology, prospects for future transcriptome analysis and upcoming model systems.
Download or read book Pan genomics Applications Challenges and Future Prospects written by Debmalya Barh and published by Academic Press. This book was released on 2020-03-06 with total page 476 pages. Available in PDF, EPUB and Kindle. Book excerpt: Pan-genomics: Applications, Challenges, and Future Prospects covers current approaches, challenges and future prospects of pan-genomics. The book discusses bioinformatics tools and their applications and focuses on bacterial comparative genomics in order to leverage the development of precise drugs and treatments for specific organisms. The book is divided into three sections: the first, an "overview of pan-genomics and common approaches, brings the main concepts and current approaches on pan-genomics research; the second, "case studies in pan-genomics, thoroughly discusses twelve case, and the last, "current approaches and future prospects in pan-multiomics, encompasses the developments on omics studies to be applied on bacteria related studies. This book is a valuable source for bioinformaticians, genomics researchers and several members of biomedical field interested in understanding further bacterial organisms and their relationship to human health. - Covers the entire spectrum of pangenomics, highlighting the use of specific approaches, case studies and future perspectives - Discusses current bioinformatics tools and strategies for exploiting pangenomics data - Presents twelve case studies with different organisms in order to provide the audience with real examples of pangenomics applicability
Download or read book Cellular and Animal Models in Human Genomics Research written by and published by Academic Press. This book was released on 2019-07-30 with total page 228 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cellular and Animal Models in Human Genomics Research provides an indispensable resource for applying comparative genomics in the annotation of disease-gene associated variants that are identified by human genomic sequencing. The book presents a thorough overview of effective protocols for the use of cellular and animal modeling methods to turn lists of plausible genes into causative biomarkers. With chapters written by international experts, the book first addresses the fundamental aspects of using cellular and animal models in genetic and genomic studies, including in-depth examples of specific models and their utility, i.e., yeast, worms, flies, fish, mice and large animals. Protocols for properly conducting model studies, genomic technology, modeling candidate genes vs. genetic variants, integrative modeling, utilizing induced pluripotent stem cells, and employing CRISPR-Cas9 are also discussed in-depth. - Provides a thorough, accessible resource that helps researchers and students employ cellular and animal models in their own genetic and genomic studies - Offers guidance on how to effectively interpret the results and significance of genetic and genomic model studies for human health - Features chapters from international experts in the use of specific cellular and animal models, including yeast, worms, flies, fish, mice, and large animals, among other organisms
