Book Volume 1273 2015

Glycoinformatics

Editors:

ISBN: 978-1-4939-2342-7 (Print) 978-1-4939-2343-4 (Online)

Table of contents (29 protocols)

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  1. Front Matter

    Pages i-xvi

  2. Software Tools for Experimental Glycan Analysis and Profiling

    1. Front Matter

      Pages 1-1

    2. No Access

      Protocol

      Pages 3-15

      Annotation of Glycomics MS and MS/MS Spectra Using the GlycoWorkbench Software Tool

    3. No Access

      Protocol

      Pages 17-28

      GlycoBase and autoGU: Resources for Interpreting HPLC-Glycan Data

    4. No Access

      Protocol

      Pages 29-40

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

  3. Glycosylation: Storing and Managing Carbohydrate Structure Data

    1. Front Matter

      Pages 41-41

    2. No Access

      Protocol

      Pages 43-54

      Handling and Conversion of Carbohydrate Sequence Formats and Monosaccharide Notation

    3. No Access

      Protocol

      Pages 55-85

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

    4. No Access

      Protocol

      Pages 87-95

      Using NMR Data on GLYCOSCIENCES.de

    5. No Access

      Protocol

      Pages 97-107

      Glycomic Analysis Using KEGG GLYCAN

    6. No Access

      Protocol

      Pages 109-124

      GlycomeDB

  4. “Understanding” Glycosylation

    1. Front Matter

      Pages 125-125

    2. No Access

      Protocol

      Pages 127-137

      Eukaryotic Glycosylation: Online Methods for Site Prediction on Protein Sequences

    3. No Access

      Protocol

      Pages 139-147

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

    4. No Access

      Protocol

      Pages 149-157

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

  5. Protein-Carbohydrate Interaction: Databases

    1. Front Matter

      Pages 159-159

    2. No Access

      Protocol

      Pages 161-179

      JCGGDB: Japan Consortium for Glycobiology and Glycotechnology Database

    3. No Access

      Protocol

      Pages 181-190

      Glycan Array Data Management at Consortium for Functional Glycomics

  6. Protein-Carbohydrate Interaction: Data Mining

    1. Front Matter

      Pages 191-191

    2. No Access

      Protocol

      Pages 193-202

      Analyzing Glycan-Binding Patterns with the ProfilePSTMM Tool

    3. No Access

      Protocol

      Pages 203-214

      Exploring the Specificities of Glycan-Binding Proteins Using Glycan Array Data and the GlycoSearch Software

    4. No Access

      Protocol

      Pages 215-226

      Statistical Analysis of Amino Acids in the Vicinity of Carbohydrate Residues Performed by GlyVicinity

  7. Structural Glycoinformatics: Databases and Tools

    1. Front Matter

      Pages 227-227

    2. No Access

      Protocol

      Pages 229-240

      Tools to Assist Determination and Validation of Carbohydrate 3D Structure Data

    3. No Access

      Protocol

      Pages 241-258

      Glyco3D: A Portal for Structural Glycosciences

  8. Structural Glycoinformatics: Structure Determination and Simulation

    1. Front Matter

      Pages 259-259

    2. No Access

      Protocol

      Pages 261-287

      Solution Conformation of Carbohydrates: A View by Using NMR Assisted by Modeling

    3. No Access

      Protocol

      Pages 289-331

      Informing Saccharide Structural NMR Studies with Density Functional Theory Calculations

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