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Quantitative Peptidomics with Isotopic and Isobaric Tags

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Peptidomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1719))

Abstract

In differential peptidomics, peptide profiles are compared between biological samples and the resulting expression levels are correlated to a phenotype of interest. This, in turn, allows us insight into how peptides may affect the phenotype of interest. In quantitative differential peptidomics, both label-based and label-free techniques are often employed. Label-based techniques have several advantages over label-free methods, primarily that labels allow for various samples to be pooled prior to liquid chromatography-mass spectrometry (LC-MS) analysis, reducing between-run variation. Here, we detail a method for performing quantitative peptidomics using stable amine-binding isotopic and isobaric tags.

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Acknowledgments

W.D.H. is a research fellow of the FWO-Flanders. The authors wish to thank the FWO (G069713 and G095915N) and KU Leuven internal funds (C14/15/049) and the European Research Council (ERC grant 586 340318) for financial support.

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Author notes

  1. Kurt Boonen and Wouter De Haes contributed equally to this work.

Authors and Affiliations

  1. Research Group of Functional Genomics and Proteomics, Department of Biology, KU Leuven, Leuven, Belgium

    Kurt Boonen, Wouter De Haes & Liliane Schoofs

  2. Research Group of Molecular and Functional Neurobiology, Department of Biology, KU Leuven, Leuven, Belgium

    Wouter De Haes

  3. Department of Electrical Engineering (ESAT), STADIUS Center for Dynamical Systems, Signal Processing and Data Analytics Department, KU Leuven, Leuven, Belgium

    Joris Van Houtven

  4. Research Group of Molecular Developmental Physiology and Signal Transduction, Department of Biology, KU Leuven, Leuven, Belgium

    Rik Verdonck

  5. Center for Proteomics, University of Antwerp, Antwerp, Belgium

    Geert Baggerman & Dirk Valkenborg

  6. Interuniversity Institute for Biostatistics and Statistical Bioinformatics, Hasselt University, Diepenbeek, Belgium

    Dirk Valkenborg

Authors
  1. Kurt Boonen
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  2. Wouter De Haes
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  3. Joris Van Houtven
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  4. Rik Verdonck
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  5. Geert Baggerman
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  6. Dirk Valkenborg
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  7. Liliane Schoofs
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Corresponding author

Correspondence to Liliane Schoofs .

Editor information

Editors and Affiliations

  1. Department of Biotechnology and Bioinformatics, Weihenstephan-Tr. University of Applied Sciences, Freising, Bayern, Germany

    Michael Schrader

  2. Department of Molecular Pharmacology, Albert Einstein College of Medicine, Bronx, New York, USA

    Lloyd Fricker

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Boonen, K. et al. (2018). Quantitative Peptidomics with Isotopic and Isobaric Tags. In: Schrader, M., Fricker, L. (eds) Peptidomics. Methods in Molecular Biology, vol 1719. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-7537-2_9

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  • DOI: https://doi.org/10.1007/978-1-4939-7537-2_9

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-7536-5

  • Online ISBN: 978-1-4939-7537-2

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