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Absolute Quantitative Targeted Proteomics Assays for Plasma Proteins

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Serum/Plasma Proteomics

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2628))

Abstract

Preclinical and clinical trials require rapid, precise, and multiplexed analytical methods to characterize the complex samples and to allow high-throughput biomarker monitoring with low consumption of sample material. Targeted proteomics has been used to address these challenges when quantifying protein abundances in complex biological matrices. In many of these studies, blood plasma is collected either as the main research or diagnostic sample or in combination with other specimens. Mass spectrometry (MS)-based targeted proteomics using multiple reaction monitoring (MRM) or parallel reaction monitoring (PRM) with stable isotope-labeled internal standard (SIS) peptides allows robust characterization of blood plasma protein via absolute quantification. Compared to other commonly used technologies like enzyme-linked immunosorbent assay (ELISA), targeted proteomics is faster, more sensitive, and more cost-effective. Here we describe a protocol for the quantification of proteins in blood plasma using targeted MRM proteomics with heavy-labeled internal standards. The 270-protein panel allows rapid and robust absolute quantitative proteomic characterization of blood plasma in a 1 h gradient. The method we describe here works for non-depleted plasma, which makes it simple and easy to implement. Moreover, the protocol works with the two most commonly used blood plasma collection methods used in practice, namely, either K2EDTA or sodium citrate as anticoagulants.

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Acknowledgments

The authors thank Genome Canada and Genome British Columbia for support (grant 282PQP).

Author information

Authors and Affiliations

  1. Center for Proteomics and Metabolomics, Leiden University Medical Center, Leiden, The Netherlands

    Yassene Mohammed

  2. University of Victoria − Genome BC Proteomics Centre, Victoria, BC, Canada

    Yassene Mohammed & David Goodlett

  3. Department of Biochemistry and Microbiology, University of Victoria, Victoria, BC, Canada

    David Goodlett

  4. University of Gdansk, International Centre for Cancer Vaccine Science, Gdansk, Poland

    David Goodlett

  5. Proteomics Centre, Segal Cancer Centre, Lady Davis Institute, Jewish General Hospital, McGill University, Montreal, QC, Canada

    Christoph H. Borchers

  6. Gerald Bronfman Department of Oncology, Jewish General Hospital, Montreal, QC, Canada

    Christoph H. Borchers

  7. Division of Experimental Medicine, McGill University, Montreal, QC, Canada

    Christoph H. Borchers

  8. Department of Pathology, McGill University, Montreal, QC, Canada

    Christoph H. Borchers

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  1. Yassene Mohammed
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  2. David Goodlett
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  3. Christoph H. Borchers
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Corresponding author

Correspondence to Yassene Mohammed .

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Editors and Affiliations

  1. Molecular Proteomics, Baker Heart and Diabetes Institute, Melbourne, VIC, Australia

    David W. Greening

  2. Department of Biochemistry and Chemistry, School of Agriculture, Biomedicine and Environment, La Trobe Institute for Molecular Science, Melbourne, VIC, Australia

    Richard J. Simpson

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Mohammed, Y., Goodlett, D., Borchers, C.H. (2023). Absolute Quantitative Targeted Proteomics Assays for Plasma Proteins. In: Greening, D.W., Simpson, R.J. (eds) Serum/Plasma Proteomics. Methods in Molecular Biology, vol 2628. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2978-9_27

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  • DOI: https://doi.org/10.1007/978-1-0716-2978-9_27

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-2977-2

  • Online ISBN: 978-1-0716-2978-9

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