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Glycoinformatics

  • Book
  • © 2015

Overview

Editors:
  1. Thomas Lütteke

    1. Justus-Liebig-University, Giessen, Germany

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    You can also search for this editor in PubMed   Google Scholar

  2. Martin Frank

    1. Biognos AB, Göteborg, Sweden

    View editor publications

    You can also search for this editor in PubMed   Google Scholar

  • Includes cutting-edge techniques for glycoinformatics studies
  • Provides practical detail essential for reproducible results
  • Contains key notes and implementation advice from the experts

Part of the book series: Methods in Molecular Biology (MIMB, volume 1273)

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Table of contents (29 protocols)

  1. Front Matter

    Pages i-xvi
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  2. Software Tools for Experimental Glycan Analysis and Profiling

    1. Front Matter

      Pages 1-1
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    2. Annotation of Glycomics MS and MS/MS Spectra Using the GlycoWorkbench Software Tool

      • David Damerell, Alessio Ceroni, Kai Maass, René Ranzinger, Anne Dell, Stuart M. Haslam
      Pages 3-15

    3. GlycoBase and autoGU: Resources for Interpreting HPLC-Glycan Data

      • Matthew P. Campbell, Lousie Royle, Pauline M. Rudd
      Pages 17-28

    4. NMR Chemical Shift Prediction of Glycans: Application of the Computer Program CASPER in Structural Analysis

      • Magnus Lundborg, Göran Widmalm
      Pages 29-40

  3. Glycosylation: Storing and Managing Carbohydrate Structure Data

    1. Front Matter

      Pages 41-41
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    2. Handling and Conversion of Carbohydrate Sequence Formats and Monosaccharide Notation

      • Thomas Lütteke
      Pages 43-54

    3. Bacterial, Plant, and Fungal Carbohydrate Structure Databases: Daily Usage

      • Philip V. Toukach, Ksenia S. Egorova
      Pages 55-85

    4. Using NMR Data on GLYCOSCIENCES.de

      • Alexander Loss, Thomas Lütteke
      Pages 87-95

    5. Glycomic Analysis Using KEGG GLYCAN

      • Kiyoko F. Aoki-Kinoshita, Minoru Kanehisa
      Pages 97-107

    6. GlycomeDB

      • René Ranzinger, William S. York
      Pages 109-124

  4. “Understanding” Glycosylation

    1. Front Matter

      Pages 125-125
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    2. Eukaryotic Glycosylation: Online Methods for Site Prediction on Protein Sequences

      • Hiren J. Joshi, Ramneek Gupta
      Pages 127-137

    3. Analyzing Glycan Structure Synthesis with the Glycan Pathway Predictor (GPP) Tool

      • Kiyoko F. Aoki-Kinoshita
      Pages 139-147

    4. Functional Network in Posttranslational Modifications: Glyco-Net in Glycoconjugate Data Bank

      • Nobuaki Miura, Takuya Okada, Daisuke Murayama, Kazuko Hirose, Taku Sato, Ryo Hashimoto et al.
      Pages 149-157

  5. Protein-Carbohydrate Interaction: Databases

    1. Front Matter

      Pages 159-159
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    2. JCGGDB: Japan Consortium for Glycobiology and Glycotechnology Database

      • Masako Maeda, Noriaki Fujita, Yoshinori Suzuki, Hiromichi Sawaki, Toshihide Shikanai, Hisashi Narimatsu
      Pages 161-179

    3. Glycan Array Data Management at Consortium for Functional Glycomics

      • Maha Venkataraman, Ram Sasisekharan, Rahul Raman
      Pages 181-190

  6. Protein-Carbohydrate Interaction: Data Mining

    1. Front Matter

      Pages 191-191
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    2. Analyzing Glycan-Binding Patterns with the ProfilePSTMM Tool

      • Kiyoko F. Aoki-Kinoshita
      Pages 193-202
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Keywords

About this book

This book provides current glycoinformatics methods and protocols used to support the determination of carbohydrate structures in biological samples as well as carbohydrate structure databases, the interaction of carbohydrates with proteins, and theoretical and experimental methods to study their three-dimensional structure and dynamics. Glycoinformatics explores this recently emerged field, which has come into being in order to address the needs of encoding, storing, and analyzing carbohydrate ‘sequences’ and their taxonomy using computers. Written in the highly successful Methods in Molecular Biology series format, chapters contain the kind of detailed description and key implementation advice to ensure successful results.

Authoritative and timely, Glycoinformatics demonstrates the progress that has been achieved in glycoinformatics, which indicates that it is no longer a niche subject covered by only a few scientists but is truly coming of age.

Editors and Affiliations

  • Justus-Liebig-University, Giessen, Germany

    Thomas Lütteke

  • Biognos AB, Göteborg, Sweden

    Martin Frank

Bibliographic Information

  • Book Title: Glycoinformatics

  • Editors: Thomas Lütteke, Martin Frank

  • Series Title: Methods in Molecular Biology

  • DOI: https://doi.org/10.1007/978-1-4939-2343-4

  • Publisher: Humana New York, NY

  • eBook Packages: Springer Protocols

  • Copyright Information: Springer Science+Business Media New York 2015

  • Hardcover ISBN: 978-1-4939-2342-7Published: 10 March 2015

  • Softcover ISBN: 978-1-4939-4195-7Published: 05 October 2016

  • eBook ISBN: 978-1-4939-2343-4Published: 09 March 2015

  • Series ISSN: 1064-3745

  • Series E-ISSN: 1940-6029

  • Edition Number: 1

  • Number of Pages: XVI, 506

  • Number of Illustrations: 36 b/w illustrations, 146 illustrations in colour

  • Topics: Bioinformatics, Carbohydrate Chemistry

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