Bioinformatics of Genome Regulation and Structure II

Author: Nikolay Kolchanov,Ralf Hofestaedt,Luciano Milanesi

Publisher: Springer Science & Business Media

ISBN: 0387294554

Category: Science

Page: 560

View: 8366

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The last 15 years in development of biology were marked with accumulation of unprecedentedly huge arrays of experimental data. The information was amassed with exclusively high rates due to the advent of highly efficient experimental technologies that provided for high throughput genomic sequencing; of functional genomics technologies allowing investigation of expression dynamics of large groups of genes using expression DNA chips; of proteomics methods giving the possibility to analyze protein compositions of cells, tissues, and organs, assess the dynamics of the cell proteome, and reconstruct the networks of protein-protein interactions; and of metabolomics, in particular, high resolution mass spectrometry study of cell metabolites, and distribution of metabolic fluxes in the cells with a concurrent investigation of the dynamics of thousands metabolites in an individual cell. Analysis, comprehension, and use of the tremendous volumes of experimental data reflecting the intricate processes underlying the functioning of molecular genetic systems are unfeasible in principle without the systems approach and involvement of the state-of-the-art information and computer technologies and efficient mathematical methods for data analysis and simulation of biological systems and processes. The need in solving these problems initiated the birth of a new science— postgenomic bioinformatics or systems biology in silico.
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Plant Genome Diversity Volume 2

Physical Structure, Behaviour and Evolution of Plant Genomes

Author: Johann Greilhuber,Jaroslav Dolezel,Jonathan Wendel

Publisher: Springer Science & Business Media

ISBN: 3709111609

Category: Science

Page: 356

View: 9441

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This second of two volumes on Plant Genome Diversity provides, in 20 chapters, insights into the structural evolution of plant genomes with all its variations. Starting with an outline of plant phylogeny and its reconstruction, the second part of the volume describes the architecture and dynamics of the plant cell nucleus, the third examines the evolution and diversity of the karyotype in various lineages, including angiosperms, gymnosperms and monilophytes. The fourth part presents the mechanisms of polyploidization and its biological consequences and significance for land plant evolution. The fifth part deals with genome size evolution and its biological significance. Together with Volume I, this comprehensive book on the plant genome is intended for students and professionals in all fields of plant science, offering as it does a convenient entry into a burgeoning literature in a fast-moving field.
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Algorithms in Bioinformatics

9th International Workshop, WABI 2009, Philadelphia, USA, September 12-13, 2009. Proceedings

Author: Steven L. Salzberg,Tandy Warnow

Publisher: Springer

ISBN: 3642042414

Category: Science

Page: 430

View: 5171

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These proceedings contain papers from the 2009 Workshop on Algorithms in Bioinformatics (WABI), held at the University of Pennsylvania in Philadelphia, Pennsylvania during September 12–13, 2009. WABI 2009 was the ninth annual conference in this series, which focuses on novel algorithms that address imp- tantproblemsingenomics,molecularbiology,andevolution.Theconference- phasizes research that describes computationally e?cient algorithms and data structures that have been implemented and tested in simulations and on real data. WABI is sponsored by the European Association for Theoretical C- puter Science (EATCS) and the International Society for Computational Bi- ogy (ISCB). WABI 2009 was supported by the Penn Genome Frontiers Institute and the Penn Center for Bioinformatics at the University of Pennsylvania. For the 2009 conference, 90 full papers were submitted for review by the Program Committee, and from this strong ?eld of submissions, 34 papers were chosen for presentation at the conference and publication in the proceedings. The ?nal programcovered a wide range of topics including gene interaction n- works, molecular phylogeny, RNA and protein structure, and genome evolution.
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Comparative Genomics

RECOMB 2004 International Workshop, RCG 2004, Bertinoro, Italy, October 16-19, 2004, Revised Selected Papers

Author: Jens Lagergren

Publisher: Springer Science & Business Media

ISBN: 9783540244554

Category: Science

Page: 134

View: 1582

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This book constitutes the thoroughly refereed post-proceedings of the RECOMB 2004 Satellite Workshop on Comparative Genomics, RCG 2004, held in Bertinoro, Italy in October 2004. The 10 revised full papers presented were carefully reviewed and improved for inclusion in the book. The papers address a broad variety of aspects of comparative genomics ranging from new quantitative discoveries about genome structures and processes to theorems on the complexity of computational problems inspired by genome comparison.
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Virus Discovery by Metagenomics: The (Im)possibilities

Author: Bas E. Dutilh,Alejandro Reyes,Richard J. Hall,Katrine L. Whiteson

Publisher: Frontiers Media SA

ISBN: 2889453081

Category:

Page: N.A

View: 9925

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Since the late 1800s, the discovery of new viruses was a gradual process. Viruses were described one by one using a suite of techniques such as (electron) microscopy and viral culture. Investigators were usually interested in a disease state within an organism, and expeditions in viral ecology were rare. The advent of metagenomics using high-throughput sequencing has revolutionized not only the rate of virus discovery, but also the nature of the discoveries. For example, the viral ecology and etiology of many human diseases are being characterized, non-pathogenic viral commensals are ubiquitous, and the description of environmental viromes is making progress. This Frontiers in Virology Research Topic showcases how metagenomic and bioinformatic approaches have been combined to discover, classify and characterize novel viruses.
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From Genes to Genomes

Concepts and Applications of DNA Technology

Author: Jeremy W. Dale,Malcolm von Schantz

Publisher: John Wiley & Sons

ISBN: 0470518707

Category: Science

Page: 394

View: 9666

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“... an excellent book... achieves all of its goals with style, clarity and completeness... You can see the power and possibilities of molecular genetics as you read...” –Human Genetics "This volume hits an outstanding balance among readability, coverage, and detail." –Biochemistry and Molecular Biology Education Rapid advances in a collection of techniques referred to as gene technology, genetic engineering, recombinant DNA technology and gene cloning have pushed molecular biology to the forefront of the biological sciences. This new edition of a concise, well-written textbook introduces key techniques and concepts involved in cloning genes and in studying their expression and variation. The book opens with a brief review of the basic concepts of molecular biology, before moving on to describe the key molecular methods and how they fit together. This ranges from the cloning and study of individual genes to the sequencing of whole genomes, and the analysis of genome-wide information. Finally, the book moves on to consider some of the applications of these techniques, in biotechnology, medicine and agriculture, as well as in research that is causing the current explosion of knowledge across the biological sciences. From Genes to Genomes: Concepts and Applications of DNA Technology, Second Edition includes full two-colour design throughout. Specific changes for the new edition include: Strengthening of gene to genome theme Updating and reinforcing of material on proteomics, gene therapy and stem cells More eukaryotic/mammalian examples and less focus on bacteria This textbook is must-have for all undergraduates studying intermediate molecular genetics within the biological and biomedical sciences. It is also of interest for researchers and all those needing to update their knowledge of this rapidly moving field.
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Genetics and Genomics of Soybean

Author: Gary Stacey

Publisher: Springer Science & Business Media

ISBN: 9780387722993

Category: Science

Page: 407

View: 3857

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Soybean genomics is of great interest as one of the most economically important crops and a major food source. This book covers recent advances in soybean genome research, including classical, RFLP, SSR, and SNP markers; genomic and cDNA libraries; functional genomics platforms; genetic and physical maps; and gene expression profiles. The book is for researchers and students in plant genetics and genomics, plant biology and pathology, agronomy, and food sciences.
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Genomes and What to Make of Them

Author: Barry Barnes,John Dupré

Publisher: University of Chicago Press

ISBN: 0226172961

Category: Science

Page: 288

View: 1732

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The announcement in 2003 that the Human Genome Project had completed its map of the entire human genome was heralded as a stunning scientific breakthrough: our first full picture of the basic building blocks of human life. Since then, boasts about the benefits—and warnings of the dangers—of genomics have remained front-page news, with everyone agreeing that genomics has the potential to radically alter life as we know it. For the nonscientist, the claims and counterclaims are dizzying—what does it really mean to understand the genome? Barry Barnes and John Dupré offer an answer to that question and much more in Genomes and What to Make of Them, a clear and lively account of the genomic revolution and its promise. The book opens with a brief history of the science of genetics and genomics, from Mendel to Watson and Crick and all the way up to Craig Venter; from there the authors delve into the use of genomics in determining evolutionary paths—and what it can tell us, for example, about how far we really have come from our ape ancestors. Barnes and Dupré then consider both the power and risks of genetics, from the economic potential of plant genomes to overblown claims that certain human genes can be directly tied to such traits as intelligence or homosexuality. Ultimately, the authors argue, we are now living with a new knowledge as powerful in its way as nuclear physics, and the stark choices that face us—between biological warfare and gene therapy, a new eugenics or a new agricultural revolution—will demand the full engagement of both scientists and citizens. Written in straightforward language but without denying the complexity of the issues, Genomes and What to Make of Them is both an up-to-date primer and a blueprint for the future.
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Genomes and Genomics of Nitrogen-fixing Organisms

Author: Rafael Palacios,William E. Newton

Publisher: Springer Science & Business Media

ISBN: 1402030541

Category: Science

Page: 242

View: 2839

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Genomes and Genomics of Nitrogen-fixing Organisms This is Volume 3 of a seven-volume series on all aspects of Nitrogen Fixation. The series aims to be the definitive authority in the field and to act as a benchmark for some years to come. Rather than attempting to cram the whole field into a single volume, the subject matter is divided among seven volumes to allow authors the luxury of writing in depth with a comprehensive reference base. All authors are recognized practicing scientists in the area of their contribution, which ensures the high quality, relevance, and readability of the chapters. In establishing the rationale for, and the organization of, this book, we realized the need to divide it into two sections. The first section should be organism based and should review our current knowledge of the genomes of nitrogen-fixing organisms and what these nucleotide sequences tell us. The second section should then be technology based. It should review what technologies are available to mine the data inherent in the nucleotide sequences and how they are now being used to produce gene-function data from differential gene expression.
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