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Bioinformatics Advance Access originally published online on March 14, 2008
Bioinformatics 2008 24(9):1214-1216; doi:10.1093/bioinformatics/btn090
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© 2008 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

GlycoBase and autoGU: tools for HPLC-based glycan analysis

Matthew P. Campbell *,{dagger}, Louise Royle {ddagger}, Catherine M. Radcliffe {dagger}, Raymond A. Dwek and Pauline M. Rudd {dagger}

Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, UK

*To whom correspondence should be addressed.


  Abstract

Summary: The development of robust high-performance liquid chromatography (HPLC) technologies continues to improve the detailed analysis and sequencing of glycan structures released from glycoproteins. Here, we present a database (GlycoBase) and analytical tool (autoGU) to assist the interpretation and assignment of HPLC-glycan profiles. GlycoBase is a relational database which contains the HPLC elution positions for over 350 2-AB labelled N-glycan structures together with predicted products of exoglycosidase digestions. AutoGU assigns provisional structures to each integrated HPLC peak and, when used in combination with exoglycosidase digestions, progressively assigns each structure automatically based on the footprint data. These tools are potentially very promising and facilitate basic research as well as the quantitative high-throughput analysis of low concentrations of glycans released from glycoproteins.

Availability: http://glycobase.ucd.ie

Contact: matthew.campbell{at}nibrt.ie

Associate Editor: Limsoon Wong

{dagger}Present address: Dublin-Oxford Glycobiology Laboratory, National Institute for Bioprocessing Research and Training, Conway Institute, University College Dublin, Dublin, Ireland.

{ddagger}Present address: Ludger Ltd, Culham Science Centre, Abingdon, Oxfordshire OX14 3EB., UK.

Received on February 8, 2008; revised on February 8, 2008; accepted on March 4, 2008

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