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The Low Molecular Weight Proteome pp 21–51Cite as

Stable Isotope Labeling Methods in Protein Profiling

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1023))

Abstract

Mass spectrometry (MS) analysis of peptides and proteins has evolved dramatically over the last 20 years. Improvement of MS instrumentation, computational data analysis, and the availability of complete sequence databases for many species have made large-scale proteomics analyses possible. The measurement of global protein abundance by quantitative mass spectrometry has the potential to increase both speed and impact of biological and clinical research. However, to be able to detect and identify potential biomarkers, reproducible and accurate quantification is essential.

The following chapter describes how to perform quantitative protein profiling using stable isotope labeling methods. Throughout, there is a focus on guidance in selection of an appropriate labeling strategy. With that in mind, we have included a section on acquisition and understanding of the liquid chromatography-mass spectrometry (LC-MS) data format.

Further, we describe the different stable isotope labeling methods and their pros and cons. We start by giving an overview of the overall quantitative proteomics workflow in which extracting relevant biological information from the acquired data is the ultimate goal.

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Author information

Authors and Affiliations

  1. Biopharmaceutical Research Unit, Department of Protein Science, Novo Nordisk A/S, Måløv, Denmark

    Johan Lengqvist

  2. Proteomics Core Faciltiy, Sahlgrenska Academy, Gothenburg University, Gothenburg, Sweden

    Johan Lengqvist

  3. Science for Life Laboratory, Department of Oncology–Pathology, Karolinska Institutet, Stockholm, Sweden

    AnnSofi Sandberg

Authors
  1. Johan Lengqvist
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  2. AnnSofi Sandberg
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Editors and Affiliations

  1. , Department of Oncology-Pathology, Karolinska Institutet, N/A, Stockholm, 17176, Sweden

    Helena Bäckvall

  2. , Department of Oncology-Pathology, Karolinska Institutet, n/a, Stockholm, 171 76, Sweden

    Janne Lehtiö

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Lengqvist, J., Sandberg, A. (2013). Stable Isotope Labeling Methods in Protein Profiling. In: Bäckvall, H., Lehtiö, J. (eds) The Low Molecular Weight Proteome. Methods in Molecular Biology, vol 1023. Springer, New York, NY. https://doi.org/10.1007/978-1-4614-7209-4_3

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  • DOI: https://doi.org/10.1007/978-1-4614-7209-4_3

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