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Seqan3 Sequence Analysis And Modern C

Author : Hannes Hauswedell
ISBN : OCLC:1258963438
Genre :
File Size : 49. 79 MB
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Sequence Analysis And Modern C

Author : Hannes Hauswedell
ISBN : 9783030909901
Genre : Computers
File Size : 71. 56 MB
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This is a book about software engineering, bioinformatics, the C++ programming language and the SeqAn library. In the broadest sense, it will help the reader create better, faster and more reliable software by deepening their understanding of available tools, language features, techniques and design patterns. Every developer who previously worked with C++ will enjoy the in-depth chapter on important changes in the language from C++11 up to and including C++20. In contrast to many resources on Modern C++ that present new features only in small isolated examples, this book represents a more holistic approach: readers will understand the relevance of new features and how they interact in the context of a large software project and not just within a "toy example". Previous experience in creating software with C++ is highly recommended to fully appreciate these aspects. SeqAn3 is a new, re-designed software library. The conception and implementation process is detailed in this book, including a critical reflection on the previous versions of the library. This is particularly helpful to readers who are about to create a large software project themselves, or who are planning a major overhaul of an existing library or framework. While the focus of the book is clearly on software development and design, it also touches on various organisational and administrative aspects like licensing, dependency management and quality control.

Methods In Protein Sequence Analysis

Author : K. Imahori
ISBN : 9781489916037
Genre : Science
File Size : 58. 3 MB
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The Ninth International Conference on Methods in Protein Sequence Analysis was held for the first time in Asia from September 20 to September 24, 1992 in Otsu (a city near Kyoto), Japan. Approximately 400 delegates attended the meeting. Forty papers were presented orally and 147 poster presentations were discussed. Academic sessions were held from early in the morning until late in the evening. We are confident that the Conference was successful in providing up-to-date information about methods in protein sequence analysis to all participants. Moreover, with the knowledge and understanding of the present standard of various methods of analysis that are being used and will be used, we were able to clarify areas that need to be evaluated, to be improved and be explored further. Major topics in the Conference mostly covered areas in the methodology of protein sequence analysis, such as: micropreparation and microsequencing of proteins, mass spectrometry, post-translational modification, prediction and database analysis, and analysis of protein structures of special interests. The evolution of genetic engineering in molecular biology has greatly accelerated the accumulation of knowledge on the amino acid sequence of novel proteins regardless of whether they are expressed or not expressed in living organisms. In the early stage of accumulation of structural information, the amino acid sequence itself is worthy of notice.

Methods In Protein Sequence Analysis ? 1986

Author : Kenneth A. Walsh
ISBN : 9781592594801
Genre : Science
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Methods in Protein Sequence Analysis -1986 brings together reports of the most recent methodology available to protein chemists for studying the molecular detail of proteins. The papers in this volume constitute the proceedings of the Sixth International Conference on Methods in Protein Sequence Analysis, which was held at the University of Washington in Seattle, Washington on August 17-21, 1986. This series of conferences has taken place during a period when new techniques in protein chemistry and molecular biology have enabled not only exploration of the control of protein function, but also deduction of the genetic origin of proteins, and labo ratory generation of rare protein molecules for therapeu tic and commercial use. The current reports are focused on the means by which experimental questions can be answered rather than on the biological implications in specific systems. The scope of the meeting was quite broad, empha sizing microanalytical techniques and the relative merits of DNA sequencing, mass spectrometry and more tradi tional degradation techniques. A highlight of the meeting was the Qrowing awareness of the role of mass spec trometry In the analysis of proteins. The complementarity of protein sequencing and DNA sequencing techniques was apparent throughout the discussions and several papers dealt with the strategy of obtaining sequence in formation from small amounts of protein in order that ap propriate oligonucleotide probes could be constructed and the encoding nucleic acids se. quenced and manipu lated.

The Peptides Analysis Synthesis Biology

Author : Erhard Gross
ISBN : 9780323155632
Genre : Science
File Size : 60. 35 MB
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The Peptides: Analysis, Synthesis, Biology: Volume 4: Modern Techniques of Conformational, Structural, and Configurational Analysis is an open-ended treatise that provides comprehensive and critical reviews of important developments in all areas of peptide research including analysis, synthesis, and biology. X-ray structure studies, amino acid analysis, and chiroptical analysis of configuration are discussed, along with solid-phase sequencing and ultramicroanalysis with the aid of fluorescence. This volume is comprised of six chapters and begins with an account of crystal structure analysis on molecules containing 2-12 peptide units, focusing on the variety of intramolecular hydrogen bonds, cis peptide units, and multiple conformation. Conformational changes upon complexation with metal ions are considered, together with the inclusion of solvents as integral parts of a molecular structure. The following chapters explore the conformations of insulin, glucagon, pancreatic polypeptide and related molecules, as well as the molecular biology of these hormones based on crystal structures; the usefulness of chiroptical techniques for determining the absolute configuration of amino acids and small peptides; and ultramicroanalysis of peptides and proteins by high performance liquid chromatography and fluorescence detection. The final chapter looks at the status and future potential of solid-phase sequencing. This book is intended as a reference for specialists, a guide for the novice, and a forum for investigators concerned with research on peptides and proteins.

Models And Applications Of Chaos Theory In Modern Sciences

Author : Elhadj Zeraoulia
ISBN : 9781439883402
Genre : Mathematics
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This book presents a select group of papers that provide a comprehensive view of the models and applications of chaos theory in medicine, biology, ecology, economy, electronics, mechanical, and the human sciences. Covering both the experimental and theoretical aspects of the subject, it examines a range of current topics of interest. It consid

Post Translational Processing

Author : S. J. Higgins
ISBN : 9780191566035
Genre : Science
File Size : 43. 54 MB
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Post - Translational Modification: A Practical Approach and its companion volume Protein Expression: A Practical Approach form the final part of the PAS mini-series on protein synthesis and processing. This volume begins with a chapter on protein sequencing followed by a chapter on protein folding and import into organelles. The next three chapters cover the three major forms of covalent modification: phosphorylation, glycosylation, and lipid modification. Proteolytic processing the is the next topic and the final two chapters are concerned with protein turnover in mammalian cells and yeast. This book is a comprehensive volume of the best current methodology and is designed to be used at the bench or away from the bench to gain insight into future experimental approached.

Methods In Protein Sequence Analysis

Author : Jörnvall
ISBN : 9783034856782
Genre : Science
File Size : 86. 76 MB
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Methods in protein sequence analysis constitute important fields in rapid progress. We have experienced a continuous increase in analytical sensitivity coupled with decreases in time necessary for purification and analysis. Several generations of sequencers, liquid/solid/gas-phase, have passed by and returned in other shapes during just over two decades. Similarly, the introduction of HPLC permitted an enormous leap forward in this as in other fields of biochemistry, and we now start to see new major advances in purification/analysis through capillary electrophoresis. Furthermore, progress in the field of mass spectrometry has matched that in chemical analysis and we witness continuous development, now emphasizing ion spray and other mass spectrometric approaches. In short, protein analysis has progressed in line with other developments in modern science and constitutes an indispensable, integral part of present-day molecular biology. Even the available molecular tools, in the form of proteases with different specificities, have increased in number, although we still have far to go to reach an array of "restriction proteases" like the sets of nucleases available to the molecular geneticist. Of course, conferences have been devoted to protein sequence analysis, in particular the MPSA (Methods in Protein Sequence Analysis) series, of which the 8th conference took place in Kiruna, Sweden, July 1-6 1990. Again, we witnessed much progress, saw new instruments, and experienced further interpretational insights into protein mechanisms and functions.

Methods In Protein Sequence Analysis

Author : Brigitte Wittmann-Liebold
ISBN : 9783642738340
Genre : Science
File Size : 61. 68 MB
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"Methods in Protein Sequence Analysis - 1988" - contains selected contributions on modern protein- analytical techniques as presented by speakers at the Seventh International Conference on "Methods in Protein Sequence Analysis", held from July 3rd to July 8th, 1988 in Berlin. The book contains information on new methodologies for sensitive amino acid analysis, N- and C-terminal sequence analysis, and protein and peptide purification. In addition recent mass spectrometric approaches are described, as an alter native technique to the common stepwise degradative sequence analysis of polypeptides by the Edman method. The book presents new possibilities in the design of sequencers and sophisticated equipment for the structural analysis of peptides and proteins. It describes practical approaches for the investigation of protein domains and protein complexes, and contains review chapters on the crystallization of cell organelles as well as on recent theoretical aspects of protein folding mechanisms. The nature of protein folding is not yet understood, but further advances in this area would greatly enhance our present knowledge of protein structure and function. Further, the book gives examples of the application of gene technology to protein characterization and to the design of new proteins. This enables new studies on the structure and function of proteins to be made, and opens up efficient approaches to the design of drugs.

Invitation To Protein Sequence Analysis Through Probability And Information

Author : Daniel J. Graham
ISBN : 9780429647888
Genre : Science
File Size : 55. 58 MB
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This book explores the remarkable information correspondences and probability structures of proteins. Correspondences are pervasive in biochemistry and bioinformatics: proteins share homologies, folding patterns, and mechanisms. Probability structures are just as paramount: folded state graphics reflect Angstrom-scale maps of electron density. The author explores protein sequences (primary structures), both individually and in sets (systems) with the help of probability and information tools. This perspective will enhance the reader’s knowledge of how an important class of molecules is designed and put to task in natural systems, and how we can approach class members in hands-on ways.

Protein Peptide Sequence Analysis Current Methodologies

Author : A.S. Bhown
ISBN : 9781351084536
Genre : Medical
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This book is an attempt to provide in a single source current state-of-the-art methodologies for protein sequence analysis. It is hoped that these various chapters are presented in such a way that both the newcomer and the established protein chemist will find useful information and directions to new techniques. This book offers a rich array of techniques and methods for sequencing proteins and peptides. It should meet the expectations of investigators in protein chemistry who wish to update their knowledge of sequencing techniques, and of those who wish to reacquaint themselves with the best available current technologies.

Using Genomics Metagenomics And Other Omics To Assess Valuable Microbial Ecosystem Services And Novel Biotechnological Applications

Author : Diana Elizabeth Marco
ISBN : 9782889458141
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Most ecosystem services and goods human populations use and consume are provided by microbial populations and communities. Indeed, numerous provisioning services (e.g. food and enzymes for industrial processes), regulating services (e.g. water quality, contamination alleviation and biological processes such as plant-microbial symbioses), and supporting services (e.g. nutrient cycling, agricultural production and biodiversity) are mediated by microbes. The fast development of metagenomics and other meta-omics technologies is expanding our understanding of microbial diversity, ecology, evolution and functioning. This enhanced knowledge directly translates into the emergence of new applications in an unlimited variety of areas across all microbial ecosystem services and goods. The varied topics addressed in this Research Topic include the development of innovative industrial processes, the discovery of novel natural products, the advancement of new agricultural methods, the amelioration of negative effects of productive or natural microbiological processes, as well as food security and human health, and archeological conservation. The articles compiled provide an updated, high-quality overview of current work in the field. This body of research makes a valuable contribution to the understanding of microbial ecosystem services, and expands the horizon for finding and developing new and more efficient biotechnological applications.

Encyclopedia Of Microbiology

Author : Thomas M. Schmidt
ISBN : 9780128117378
Genre : Science
File Size : 90. 65 MB
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Encyclopedia of Microbiology, Fourth Edition gathers both basic and applied dimensions in this dynamic field that includes virtually all environments on Earth. This range attracts a growing number of cross-disciplinary studies, which the encyclopedia makes available to readers from diverse educational backgrounds. The new edition builds on the solid foundation established in earlier versions, adding new material that reflects recent advances in the field. New focus areas include `Animal and Plant Microbiomes’ and ‘Global Impact of Microbes`. The thematic organization of the work allows users to focus on specific areas, e.g., for didactical purposes, while also browsing for topics in different areas. Offers an up-to-date and authoritative resource that covers the entire field of microbiology, from basic principles, to applied technologies Provides an organic overview that is useful to academic teachers and scientists from different backgrounds Includes chapters that are enriched with figures and graphs, and that can be easily consulted in isolation to find fundamental definitions and concepts

Proceedings

Author :
ISBN : UCSD:31822018589168
Genre : Biology
File Size : 75. 73 MB
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Computational Text Analysis

Author : Soumya Raychaudhuri
ISBN : 9780191513770
Genre : Science
File Size : 26. 15 MB
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This book brings together the two disparate worlds of computational text analysis and biology and presents some of the latest methods and applications to proteomics, sequence analysis and gene expression data. Modern genomics generates large and comprehensive data sets but their interpretation requires an understanding of a vast number of genes, their complex functions, and interactions. Keeping up with the literature on a single gene is a challenge itself-for thousands of genes it is simply. impossible. Here, Soumya Raychaudhuri presents the techniques and algorithms needed to access and utilize the vast scientific text, i.e. methods that automatically read the literature on all the genes. Including background chapters on the necessary biology, statistics and genomics, in addition to practical examples of interpreting many different types of modern experiments, this book is ideal for students and researchers in computational biology, bioinformatics, genomics, statistics and computer science

Advances In Sequence Analysis Theory Method Applications

Author : Philippe Blanchard
ISBN : 9783319049694
Genre : Social Science
File Size : 90. 72 MB
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This book gives a general view of sequence analysis, the statistical study of successions of states or events. It includes innovative contributions on life course studies, transitions into and out of employment, contemporaneous and historical careers, and political trajectories. The approach presented in this book is now central to the life-course perspective and the study of social processes more generally. This volume promotes the dialogue between approaches to sequence analysis that developed separately, within traditions contrasted in space and disciplines. It includes the latest developments in sequential concepts, coding, atypical datasets and time patterns, optimal matching and alternative algorithms, survey optimization, and visualization. Field studies include original sequential material related to parenting in 19th-century Belgium, higher education and work in Finland and Italy, family formation before and after German reunification, French Jews persecuted in occupied France, long-term trends in electoral participation, and regime democratization. Overall the book reassesses the classical uses of sequences and it promotes new ways of collecting, formatting, representing and processing them. The introduction provides basic sequential concepts and tools, as well as a history of the method. Chapters are presented in a way that is both accessible to the beginner and informative to the expert.

Methods In Protein Sequence Analysis

Author : Marshall Elzinga
ISBN : 9781461258322
Genre : Science
File Size : 74. 46 MB
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Methods in Protein Sequence Analysis contains an intensely prac tical account of all the new methodology available to scientists carrying out protein and peptide sequencing studies. Many of the striking advances in fields as diverse as immunology, cell motility, and neurochemistry have in fact been fueled by our ever more powerful ability to determine the sequences and structures of key proteins and peptides. It is our hope that the rich array of tech niques and methods for sequencing proteins discussed in this volume-methods that generate much of the information crucial to progress in modern biology-will now become accessible to all who can benefit from them. The papers of the present volume constitute the Proceedings of the IVth International Conference on Methods in Protein Se quence Analysis, which was held at Brookhaven National Labo ratory, Upton, NY, September 21-25, 1981. It was the most recent in a series of biennial conferences, the previous one having been held in Heidelberg, GFR, in 1979. The series was originated by Richard Laursen, and initially dealt with one aspect of the field, solid-phase sequencing. The scope of the meeting was very broad and among the many aspects of protein sequencing discussed were: instrumentation, strategy, chemicals, mass spectrometry, cleavage of proteins and separation of peptides, and solid, liquid, manual, and even "gas phase" sequencing.

Sedimentation Tectonics And Eustasy

Author : David I. M. Macdonald
ISBN : 9781444303902
Genre : Science
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Over the last ten years, seismic and sequence stratigraphic studies have emphasized the role of worldwide fluctuations in sea level in controlling patterns of sedimentation. Widely recognized cycles of coastal onlap are thought to have been caused by such global changes. This postgraduate and reference text contains contributions from an international team of specialists. The book is based upon an IAS meeting which focused attention on the situation at active plate margins, covering three major themes: the underlying mechanics and rates of relative sea-level change at active plate margins; the interaction of eustatic and tectonic processes at modern margins; recognition of the products in the sedimentary record and possible criteria for distinguishing global eustatic from local tectonic effects. This book is intended for those studying and working in sedimentology, basin analysis, exploration geophysics and petroleum geology.

Problems And Solutions In Biological Sequence Analysis

Author : Mark Borodovsky
ISBN : 9781139458122
Genre : Science
File Size : 77. 84 MB
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This book is the first of its kind to provide a large collection of bioinformatics problems with accompanying solutions. Notably, the problem set includes all of the problems offered in Biological Sequence Analysis (BSA), by Durbin et al., widely adopted as a required text for bioinformatics courses at leading universities worldwide. Although many of the problems included in BSA as exercises for its readers have been repeatedly used for homework and tests, no detailed solutions for the problems were available. Bioinformatics instructors had therefore frequently expressed a need for fully worked solutions and a larger set of problems for use on courses. This book provides just that: following the same structure as BSA and significantly extending the set of workable problems, it will facilitate a better understanding of the contents of the chapters in BSA and will help its readers develop problem-solving skills that are vitally important for conducting successful research in the growing field of bioinformatics. All of the material has been class-tested by the authors at Georgia Tech, where the first ever M.Sc. degree program in Bioinformatics was held.

Introduction To Peptides And Proteins

Author : Ulo Langel
ISBN : 9781439882047
Genre : Medical
File Size : 24. 17 MB
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Human cells produce at least 30,000 different proteins. Each has a specific function characterized by a unique sequence and native conformation that allows it to perform that function. While research in this post-genomic era has created a deluge of invaluable information, the field has lacked for an authoritative introductory text needed to inform researchers and students in all of those fields now concerned with protein research. Introduction to Peptides and Proteins brings together some of the most respected researchers in protein science to present a remarkably coherent introduction to modern peptide and protein chemistry. The first sections of the book delve into – Basic peptide and protein science from assembly through degradation Traditional and emerging research methods including those used in bioinformatics and proteomics New computational approaches and algorithms used to find patterns in the vast data collected by sequencing projects After providing a foundation in tools and methods, the authors closely examine six protein families, including representative classes such as enzymes, cell-surface receptors, antibodies, fibrous proteins, and bioactive peptide classes. They concentrate on biochemical mechanisms and where possible indicate therapeutic or biotechnical possibilities. Then focusing on clinical aspects, the authors investigate misfolding as found in prion diseases, miscleavage as found in Alzheimer’s, and mis-sequencing as found with some cancers. Drawing from some of their own research, the authors summarize recent achievements and emerging applications. They discuss the use of proteins and peptides as drugs and the solid-phase synthesis required for drug production. They also look at the use of peptides as functional biomolecules and research tools. No longer just the domain of biologists, many key advances in protein research started in physics labs and have involved contributions from a host of fields including statistics, drug development, genetics, and chemical spectroscopy. Introduction to Peptides and Proteins provides researchers across these fields with the thorough foundation needed to explore all the potential that protein research offers.

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