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Computational and Statistical Methods for High-Throughput Mass Spectrometry-Based PTM Analysis

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Protein Bioinformatics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1558))

Abstract

Cell signaling and functions heavily rely on post-translational modifications (PTMs) of proteins. Their high-throughput characterization is thus of utmost interest for multiple biological and medical investigations. In combination with efficient enrichment methods, peptide mass spectrometry analysis allows the quantitative comparison of thousands of modified peptides over different conditions. However, the large and complex datasets produced pose multiple data interpretation challenges, ranging from spectral interpretation to statistical and multivariate analyses. Here, we present a typical workflow to interpret such data.

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Acknowledgments

VS was funded by the Danish Council for Independent Research and the EU ELIXIR consortium (Danish ELIXIR node). This work was conducted as part of the EuPA Bioinformatics Community (EuBIC) initiative supported by the European Proteomics Association (EuPA).

Author information

Authors and Affiliations

  1. Protein Research Group, Department of Biochemistry and Molecular Biology, University of Southern Denmark, Campusvej 55, 5230, Odense, Denmark

    Veit Schwämmle

  2. Proteomics Unit, Department of Biomedicine, University of Bergen, Jonas Lies vei 91, 5020, Bergen, Norway

    Marc Vaudel

Authors
  1. Veit Schwämmle
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  2. Marc Vaudel
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Corresponding author

Correspondence to Veit Schwämmle .

Editor information

Editors and Affiliations

  1. Center for Bioinformatics and Computational Biology, University of Delaware, Newark, Delaware, USA

    Cathy H. Wu

  2. Center for Bioinformatics and Computational Biology, University of Delaware, Newark, Delaware, USA

    Cecilia N. Arighi

  3. Department of Biochemistry and Molecular and Cellular Biology, Georgetown University Medical Center, Washington, District of Columbia, USA

    Karen E. Ross

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Schwämmle, V., Vaudel, M. (2017). Computational and Statistical Methods for High-Throughput Mass Spectrometry-Based PTM Analysis. In: Wu, C., Arighi, C., Ross, K. (eds) Protein Bioinformatics. Methods in Molecular Biology, vol 1558. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6783-4_21

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  • DOI: https://doi.org/10.1007/978-1-4939-6783-4_21

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-6781-0

  • Online ISBN: 978-1-4939-6783-4

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