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

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Glycoinformatics

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

Abstract

The GlycoWorkbench software tool allows users to semiautomatically annotate glycomics MS and MS/MS spectra and MS glycoproteomics spectra. The GlycanBuilder software tool is embedded within GlycoWorkbench allowing users to draw glycan structures and export images of the drawn structures. This chapter demonstrates to users how to draw glycan structures within GlycoWorkbench using the GlycanBuilder software tool. This chapter also demonstrates how to use GlycoWorkbench to import MS and MS/MS glycomics spectra and use the cascading annotation feature to annotate both the MS and MS/MS spectra with a single command.

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References

  1. Ceroni A et al (2008) GlycoWorkbench: a tool for the computer-assisted annotation of mass spectra of glycans. J Proteome Res 7:1650–1659

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Acknowledgements

We thank all the researchers using GlycoWorkbench and Glycan-Builder for the fruitful replies and suggestions that helped us to fix errors and improve both tools with new functionality. GlycoWorkbench and GlycanBuilder were developed as part of the EUROCarbDB project, a Research Infrastructure Design Study Funded by the sixth Research Framework Program of the European Union (Contract: RIDS Contract number 011952). This work is also supported by the Biotechnology and Biological Sciences Research Council (BBSRC), grant BBF0083091 (to A.D. and S.M.H.).

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Authors and Affiliations

  1. Department of Life Sciences, Faculty of Natural Sciences, Sir Ernst Chain Building, Imperial College London, South Kensington Campus, London, SW7 2AZ, UK

    David Damerell & Stuart M. Haslam

  2. Genedata GmbH, Lena-Christ-Strasse 50, 82152, Martinsried, Germany

    Alessio Ceroni

  3. Institute for Inorganic and Analytical Chemistry, Justus-Liebig-University Giessen, Giessen, Germany

    Kai Maass

  4. Complex Carbohydrate Research Center, University of Georgia, Athens, GA, 30602, USA

    René Ranzinger

  5. Faculty of Natural Sciences, Division of Molecular Biosciences, School of LifeSciences, Imperial College London, Biochemistry Building, SouthKensington Campus, London, SW7 2AZ, UK

    Anne Dell

Authors
  1. David Damerell
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  2. Alessio Ceroni
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  3. Kai Maass
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  4. René Ranzinger
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  5. Anne Dell
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  6. Stuart M. Haslam
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Corresponding author

Correspondence to Stuart M. Haslam .

Editor information

Editors and Affiliations

  1. Justus-Liebig-University, Giessen, Germany

    Thomas Lütteke

  2. Biognos AB, Göteborg, Sweden

    Martin Frank

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© 2015 Springer Science+Business Media New York

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Damerell, D., Ceroni, A., Maass, K., Ranzinger, R., Dell, A., Haslam, S.M. (2015). Annotation of Glycomics MS and MS/MS Spectra Using the GlycoWorkbench Software Tool. In: Lütteke, T., Frank, M. (eds) Glycoinformatics. Methods in Molecular Biology, vol 1273. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-2343-4_1

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  • DOI: https://doi.org/10.1007/978-1-4939-2343-4_1

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-2342-7

  • Online ISBN: 978-1-4939-2343-4

  • eBook Packages: Springer Protocols

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