الصفحة 4
الصفحة 4
Frontiers of Computational Science ; Proceedings of the International Symposium on Frontiers of Computational Science 2005
With the dramatic increase in speed and capacity of modern computers, computational approaches are becoming of crucial importance in various fields of science and engineering. Computational science is the interdisciplinary science, which promotes systematic development of methodologies and framework of computational approaches, basic studies of algorithms and soft-computation technologies and vast areas of applications. This volume is the proceedings of International Symposium on Frontiers of Computational Science 2005, containing papers from 7 plenary and keynote lecturers, 17 invited lecturers and 33 contributed papers. This book discusses the high-level use of computers in a wide variety of areas such as fluid mechanics, material and genome sciences.
Forest Trees
Genome Mapping and Molecular Breeding in Plants presents the current status of the elucidation and improvement of plant genomes of economic interest. The focus is on genetic and physical mapping, positioning, cloning, monitoring of desirable genes by molecular breeding and the most recent advances in genomics. The series comprises seven volumes: Cereals and Millets; Oilseeds; Pulses, Sugar and Tuber Crops; Fruits and Nuts; Vegetables; Technical Crops; and Forest Trees. Forest trees cover one third of the global land surface, constitute many ecosystems and play a pivotal role in the world economy. Despite their importance in the economy, ecology and environment, genetic analysis and breeding efforts have lagged behind. Presented here are chapters on Populus trees, pines, Fagaceae trees, eucalypts, spruces, Douglas fir and black walnut, and a first-ever detailed review of Cryptomeria japonica. Innovative strategies to address the inherent problems of genome analysis of tree species are thoroughly discussed.
Foot-and-Mouth Disease Virus
The chapters in this volume provide an account of the present knowledge and understanding of Foot and Mouth disease virus pathogenesis and global epidemiology, the detailed structure of the virus itself and the properties of its RNA genome. Also considered are the immune response of the host and the state of the art in vaccine production, and the nature of virus evolution.
Foodborne bacterial pathogens : Methods and protocols
This updated volume presents a compilation of various representative techniques and approaches currently used to study bacterial foodborne pathogens. Chapters guide the reader through bacterial pathogen detection and quantification in food, molecular, phenotypic, metabolic characterization of food pathogens, and ecology of foodborne bacterial pathogens. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.
Evolving methods for macromolecular crystallography : The structural path to the understanding of the mechanism of action of CBRN agents
This volume comprises papers presented at the 2005 edition of the “Crystallography of Molecular Biology” courses that have been held since 1976 at the Ettore Majorana Centre for Scientific Culture in Erice, Italy. The papers span the breadth of material presented in the course, which emphasized the practical aspects of modern macromolecular crystallography and its applications.
Evolutionary Genomics : Statistical and Computational Methods
This book addresses the challenge of analyzing and understanding the evolutionary dynamics of complex biological systems at the genomic level, and elaborates on some promising strategies that would bring us closer to uncovering of the vital relationships between genotype and phenotype. After a few educational primers, the book continues with sections on sequence homology and alignment, phylogenetic methods to study genome evolution, methodologies for evaluating selective pressures on genomic sequences as well as genomic evolution in light of protein domain architecture and transposable elements, population genomics and other omics, and discussions of current bottlenecks in handling and analyzing genomic data. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of detail and expert implementation advice that lead to the best results.
Evolution from Cellular to Social Scales
Evolution is a critical challenge for many areas of science, technology and development of society. The book reviews general evolutionary facts such as origin of life and evolution of the genome and clues to evolution through simple systems. Emerging areas of science such as "systems biology" and "bio-complexity" are founded on the idea that phenomena need to be understood in the context of highly interactive processes operating at different levels and on different scales. This is where physics meets complexity in nature, and where we must begin to learn about complexity if we are to understand it. Similarly, there is an increasingly urgent need to understand and predict the evolutionary behavior of highly interacting man-made systems, in areas such as communications and transport, which permeate the modern world. The same applies to the evolution of human networks such as social, political and financial systems, where technology has tended to vastly increase both the complexity and speed of interaction, which is sometimes effectively instantaneous.
Ergodic Dynamics : From Basic Theory to Applications
This textbook provides a broad introduction to the fields of dynamical systems and ergodic theory. Motivated by examples throughout, the author offers readers an approachable entry-point to the dynamics of ergodic systems. Modern and classical applications complement the theory on topics ranging from financial fraud to virus dynamics, offering numerous avenues for further inquiry. Starting with several simple examples of dynamical systems, the book begins by establishing the basics of measurable dynamical systems, attractors, and the ergodic theorems. From here, chapters are modular and can be selected according to interest. Highlights include the Perron–Frobenius theorem, which is presented with proof and applications that include Google PageRank. An in-depth exploration of invariant measures includes ratio sets and type III measurable dynamical systems using the von Neumann factor classification. Topological and measure theoretic entropy are illustrated and compared in detail, with an algorithmic application of entropy used to study the papillomavirus genome. A chapter on complex dynamics introduces Julia sets and proves their ergodicity for certain maps. Cellular automata are explored as a series of case studies in one and two dimensions, including Conway’s Game of Life and latent infections of HIV. Other chapters discuss mixing properties, shift spaces, and toral automorphisms.
Epigenome editing : Methods and protocols
This second volume details new and updated methods covering applications of epigenome editing. Chapters guide readers through general and topical reviews, DNA-binding devices, optimization of the effector domains, readout of epigenome marks, and approaches for delivery at the cellular and organismal level. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and key tips on troubleshooting and avoiding known pitfalls.
Entry Inhibitors in HIV Therapy
The introductory chapters of this book present an overview of entry inhibitors, review current knowledge of how Env mediates entry, and discuss the challenge of genetic diversity in this region of the viral genome. Subsequent chapters feature current information on individual classes of entry inhibitors that target each step of the virus entry pathway, from attachment to membrane fusion. There is an emphasis on the complex determinants of entry inhibitor susceptibility, resistance mechanisms, the need for clinical phenotyping, and how these issues create new challenges for antiretroviral therapy. Encouraging pre-clinical studies of entry inhibitors as microbicidesare also discussed. The final chapters highlight the current status of entry inhibitors in clinical studies, the major milestone achieved with FDA approval of enfuvirtide, and review drug development, past and present.
Emergent Computation : Emphasizing Bioinformatics
Emergent Computation is concerned with recent applications of Mathematical Linguistics or Automata Theory. This subject has a primary focus upon ""Bioinformatics"" (the Genome and arising interest in the Proteome), but the closing chapter also examines applications in Biology, Medicine, Anthropology, etc. The book is composed of an organized examination of DNA, RNA, and the assembly of amino acids into proteins. Rather than examine these areas from a purely mathematical viewpoint (that excludes much of the biochemical reality), the author uses scientific papers written mostly by biochemists based upon their laboratory observations. Thus while DNA may exist in its double stranded form, triple stranded forms are not excluded. Similarly, while bases exist in Watson-Crick complements, mismatched bases and abasic pairs are not excluded, nor are Hoogsteen bonds. Just as there are four bases naturally found in DNA, the existence of additional bases is not ignored, nor amino acids in addition to the usual complement of 20. Can there be more than ""64"" possible codons? RNA is examined from the point of view of Nussinov plots.
Drug Targets in Kinetoplastid Parasites
The book contains 12 chapters contributed by eminent scientists working in this field. The articles deal mainly with two aspects: visual identification of targets and identification of therapeutic agents.Several targets like kDNA replication machinery, purine salvage pathway, purine and pyrimidine biosynthetic pathway, histone deacetylase, DNA topoisomerases, membrane transporter proteins, glycoproteins and glycolipids are discussed in this book. Since current treatments for kinetoplastid parasitic diseases are far from ideal, there is an urgent and genuine need to develop newer compounds as antiparasitic drug candidates. Therefore evelopment of some lead compounds against these parasites as well as drug resistance are also included in this book. Moreover the vast amount of information generated after publication of the "Trytrip" genome sequence now makes possible several new approaches for target identification and discovery of therapeutic agents. This book is an outcome of the contributions of many scientists working in this important area.
DNA Methylation and Cancer Therapy
DNA methylation pat terns emerged as the only component of the chemical structure of DNA that exhibited tissue and cell specificity. This data seemingly provided an attrac tively simple explanation for the longstanding dilemma of how could one identical genome manifest itself in so many different forms in multicellular organisms? The DNA methylation pattern has thus become the only known factor to confer upon DNA a unique cellular identity.
DNA Methylation : Development, Genetic Disease and Cancer
It has become apparent that the genomes of many organisms are characterized by unique patterns of DNA methylation which can differ from genome segment to genome segment and cell type to cell type. These patterns can be instrumental in determining cell type and function. Thus, it is not surprising that studies on the role of DNA methylation now occupy center stage in many fields of biology and medicine such as developmental biology, genetic imprinting, genetic disease, tumor biology, gene therapy, cloning of organisms and others. Once again, basic research in molecular biology has provided the essential foundation for investigations of biomedical problems.
DNA Methylation : Basic Mechanisms
The structural and functional importance of the correct patterns of DNA methylation in all parts of a mammalian genome is not well understood. The stability, inheritability, and developmental flexibility of these patterns point to a major role that these patterns appear to play in determining structure and function of the genome.
DNA manipulation and analysis
Details technologies on recombinant DNA and nucleic acid manipulation that underpin much of the biological sciences and instructions on how to conduct them successfully. Chapters guide the reader through the basics of oligonucleotide synthesis and DNA sequencing; recombinant DNA plasmid work; cell-free experiments and the latest developments in CRISPR approaches to genome modification.
DNA damage detection : Methods and protocols
Explores techniques in DNA damage analysis, important not only for understanding cellular health after exposure to genotoxic agents but also for assessing cellular ability of genome maintenance. The book explores traditional DNA damage measurement methods, as well as modern fluorescence-based analysis and high throughput automatic analysis methods. Written for the highly successful Methods in Molecular Biology series, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step and readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Distributed, High-Performance and Grid Computing in Computational Biology ; International Workshop, GCCB 2006, International Workshop, GCCB 2006, Eilat, Israel, January 21, 2007, Proceedings
Modern computational biology and bioinformatics are characterized by large and complex structured data and by applications requiring considerable computing resources, such as processing units, storage elements and software programs. In addition, these disciplines are intrinsically geographically distributed in terms of their instruments, communities and computing resources. Tackling the computational challenges in computational biology and bioinformatics increasingly requires high-end and distributed computing infrastructures, systems and tools.
Distributed and parallel computing ; 6th International conference on algorithms and architectures for parallel processing, ICA3PP, Melbourne, Australia, October 2-3, 2005, Proceedings
There are many applications that require parallel and distributed processing to allow complicated engineering, business and research problems to be solved in a reasonable time. Parallel and distributed processing is able to improve company profit, lower costs of design, production, and deployment of new technologies, and create better business environments. The major lesson learned by car and aircraft engineers, drug manufacturers, genome researchers and other specialist is that a computer system is a very powerful tool that is able to help them solving even more complicated problems. That has led computing specialists to new computer system architecture and exploiting parallel computers, clusters of clusters, and distributed systems in the form of grids.
Dictyostelium discoideum : Methods and protocols
Discusses the latest advancements and techniques used to study Dictyostelium discoideum. The chapters in this book cover topics such as cytokinesis, membrane function and damage, and nutrient/bacterial processing; autophagy activation and function; protein localization, interaction, and activation; cell migration and contact guidance for quantification of cytoskeletal dynamics; and global mutational screening, transcriptome analyses, and proteomics that apply to all stages of the Dictyostelium life cycle and that may generalize to human disease models. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
