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E-grāmata: Bioinformatics for Glycobiology and Glycomics - An Introduction: An Introduction [Wiley Online]

Edited by (German Cancer Research Centre), Edited by (Giessen University, Germany), Edited by (University of Heidelberg, Germany)
  • Formāts: 494 pages
  • Izdošanas datums: 04-Dec-2009
  • Izdevniecība: John Wiley & Sons Inc
  • ISBN-10: 470029617
  • ISBN-13: 9780470029619
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  • Wiley Online
  • Cena: 201,61 €*
  • * this price gives unlimited concurrent access for unlimited time
  • Formāts: 494 pages
  • Izdošanas datums: 04-Dec-2009
  • Izdevniecība: John Wiley & Sons Inc
  • ISBN-10: 470029617
  • ISBN-13: 9780470029619
Citas grāmatas par šo tēmu:
This book is the first to be dedicated to the bioinformatics of carbohydrates and glycoproteins. It provides an introduction to this emerging field of science both for the experimentalist working in glycobiology and glycomics, and also for the computer scientist looking for background information for the development of highly sophisticated algorithmic approaches. The book provides an overview of the state-of-the-art in the field, with reviews on databases, and the tools in use for analysis, interpretation, and prediction of the structures of complex carbohydrates, and demonstrates the value of bioinformatics for glycobiology.
The availability of comprehensive databases and corresponding bioinformatics tools, to access and analyse the large amounts of experimental data relating to the structure of carbohydrates, will be a prerequisite for the success of the large-scale glycomics projects that aim to decipher new, so far unknown, biological functions of glycans. Efficient bioinformatics descriptions and tools can considerably enhance the efficiency of glycomics research, in terms of data quality, analysis and experimental costs.
For a complete understanding of the molecular processes in which carbohydrates are involved, such as proteincarbohydrate interactions and the impact of glycosylation on protein function, knowledge of the 3D structure of the carbohydrate, the protein-carbohydrate complex, or the glycoprotein is often indispensable. This book provides a thorough introduction into methods used for conformational analysis of carbohydrates.



This book is the first dedicated to the bioinformatics of carbohydrates and glycoproteins. It provides a state-of-the-art overview and demonstrates the value of bioinformatics for glycobiology, not simply as a review of databases and tools but rather as an introduction to a new branch of glycobiology.

Efficient bioinformatics descriptions and tools can considerably enhance the efficiency of glycomics research, in terms of data quality, analysis and experimental costs. This book illustrates ways to use bioinformatics to enhance glycomics data mining and improve glycomics analysis

List of Contributors
ix
Preface xv
Claus-Wilhelm von der Lieth
Section 1: Introduction
Glycobiology, Glycomics and (Bio)Informatics
3(20)
Claus-Wilhelm von der Lieth
Section 2: Carbohydrate Structures
Introduction to Carbohydrate Structure and Diversity
23(26)
Stephan Herget
Rene Ranzinger
Robin Thomson
Martin Frank
Claus-Wilhelm von der Lieth
Digital Representations of Oligo-and Polysaccharides
49(20)
Stephan Herget
Claus-Wilhelm von der Lieth
Evolutionary Considerations in Studying the Sialome: Sialic Acids and the Host-Pathogen Interface
69(22)
Amanda L. Lewis
Ajit Varki
Section 3: Carbohydrate-active Enzymes and Glycosylation
Carbohydrate-active Enzymes Database: Principles and Classification of Glycosyltransferases
91(28)
Pedro M. Coutinho
Corinne Rancurel
Mark Stam
Thomas Bernard
Francisco M. Couto
Etienne G. J. Danchin
Bernard Henrissat
Other Databases Providing Glycoenzyme Data
119(6)
Thomas Lutteke
Claus-Wilhelm von der Lieth
Bioinformatics Analysis of Glycan Structures from a Genomic Perspective
125(18)
Kiyoko F. Aoki-Kinoshita
Minoru Kanehisa
Glycosylation of Proteins
143(20)
Claus-Wilhelm von der Lieth
Thomas Lutteke
Prediction of Glycosylation Sites in Proteins
163(32)
Karin Julenius
Morten B. Johansen
Yu Zhang
Søren Brunak
Ramneek Gupta
Section 4: Experimental Methods - Bioinformatic Requirements
Experimental Methods for the Analysis of Glycans and Their Bioinformatics Requirements
195(8)
Claus-Wilhelm von der Lieth
Analysis of N- and O-Glycans of Glycoproteins by HPLC Technology
203(20)
Anthony H. Merry
Sviatlana A. Astrautsova
Glycomic Mass Spectrometric Analysis and Data Interpretation Tools
223(34)
Niclas G. Karlsson
Nicolle H. Packer
Software Tools for Semi-automatic Interpretation of Mass Spectra of Glycans
257(12)
Kai Maass
Alessio Ceroni
Informatics Concepts to Decode Structure-Function Relationships of Glycosaminoglycans
269(26)
Rahul Raman
S. Raguram
Ram Sasisekharan
NMR Databases and Tools for Automatic Interpretation of Spectra of Carbohydrates
295(16)
Claus-Wilhelm von der Lieth
Automatic Spectrum Interpretation Based on Increment Rules: CASPER
311(10)
Roland Stenutz
Interpretation of 13C NMR Spectra by Artificial Neural Network Techniques (NeuroCarb)
321(16)
Andreas Stoeckli
Matthias Studer
Brian Cutting
Beat Ernst
Section 5: 3D Structures of Complex Carbohydrates
Conformational Analysis of Carbohydrates - A Historical Overview
337(22)
Martin Frank
Predicting Carbohydrate 3D Structures Using Theoretical Methods
359(30)
Martin Frank
Synergy of Computational and Experimental Methods in Carbohydrate 3D Structure Determination and Validation
389(26)
Thomas Lutteke
Martin Frank
Section 6: Protein-Carbohydrate Interaction
Structural Features of Lectins and Their Binding Sites
415(18)
Remy Loris
Statistical Analysis of Protein-Carbohydrate Complexes Contained in the PDB
433(28)
Thomas Lutteke
Wilhelm von der Lieth
Section 7: Appendices
Appendix 1: List of Available Websites
449(4)
Appendix 2: Glossary
453(8)
Index 461
Dr. Claus-Wilhelm von der Lieth, died 2007.

Thomas Lütteke, Justus-Liebig University Giessen, Germany; Fakulty of Veterinary Medicine, Institute of Biochemistry und Endocrinology.

Dr. Martin Frank, German Cancer Research Center, Heidelberg, Germany; Bijvoet Center for Biomolecular Research, Utrecht University, The Netherlands.