GlycoDigest: a tool for exoglycosidase digestions

About GlycoDigest

Sequencing oligosaccharides by exoglycosidases, either sequentially or in an array format, is a powerful tool to unambiguously determine the structure of complex N- and O-link glycans.

GlycoDigest a tool that simulates exoglycosidase digestion, based on controlled rules acquired from expert knowledge and experimental evidence available in GlycoBase. The tool allows the targeted design of glycosidase enzyme mixtures by allowing researchers to model the action of exoglycosidases, thereby validating and improving the efficiency and accuracy of glycan analysis.

Getting Started Guide

Download Desktop Application

The standalone version of GlycoDigest can be downloaded below. To run the tool you must have Java installed.

Download GlycoDigest

Built into UniCarbKB

For each fully annotated structure in UniCarbKB a link is provided for users to test panels of exoglycosidases.

See an Example

Exoglycosidase Examples

Careful design and formulation of exoglycosidase arrays is critical to the success of correct glycan structural assignments.

How to use exoglycosidases

Exoglycosidase Information

For a detailed description of how to prepare and design exoglycosidases experiments refer to 'Detailed Structural Analysis of N-Glycans Released From Glycoproteins in SDS-PAGE Gel Bands Using HPLC Combined With Exoglycosidase Array Digestions' by Louise Royle, Catherine M. Radcliffe, Raymond A. Dwek, and Pauline M. Rudd (Methods in Molecular Biology)

Liaqat Ali et al., have published guidelines for using exoglycosidases to structurally characterise O-links using LC-MS/MS 'Structural Identification of O-Linked Oligosaccharides Using Exoglycosidases and MSn Together with UniCarb-DB Fragment Spectra Comparison' (Metabolites)

To guide researchers we have put together a couple of exoglycosidase examples and provided a pictorial representation of the most commonly used enzymes. To ensure that exoglycosidases are active IgG or Fetuin are common standards - we have uploaded example LC-MS IgG data and 2-AB HPLC IgG can be access in the above Methods Chapter.

The Team

LOU GOTZ

Developer: Master Student

Swiss Institute of Bioinformatics, Switzerland

JODIE ABRAHAMS

Analytical: PhD Student

Macquarie University, Australia

JULIEN MARIETHOZ

Developer: PhD Student

Swiss Institute of Bioinformatics, Switzerland

PAULINE RUDD

Principal Investigator

NIBRT, Ireland

MATTHEW CAMPBELL

Research Fellow

Macquarie University,Australia

NICLAS KARLSSON

Principal Investigator

University of Gothenburg, Sweden

NICOLLE PACKER

Principal Investigator

Macquarie University, Australia

FREDERIQUE LISACEK

Principal Investigator

Swiss Institute of Bioinformatics, Switzerland

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