Applications of mass spectrometry for quantitative protein analysis in formalin-fixed paraffin-embedded tissues

Authors

  • Carine Steiner,

    Corresponding author
    1. Division of Laboratory Medicine, Geneva University Hospital, Geneva, Switzerland
    2. Human Protein Sciences Department, University of Geneva, Geneva, Switzerland
    3. Translational Technologies and Bioinformatics, Pharma Research and Early Development, F. Hoffmann-La Roche AG, Basel, Switzerland
    • Correspondence: Dr. Carine Steiner, Translational Technologies and Bioinformatics, Pharma Research and Early Development, F. Hoffmann-La Roche Ltd, CH-4070 Basel, Switzerland

      E-mail: carine.steiner@roche.com

      Fax: +41-61-688-19-29

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  • Axel Ducret,

    1. Translational Technologies and Bioinformatics, Pharma Research and Early Development, F. Hoffmann-La Roche AG, Basel, Switzerland
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  • Jean-Christophe Tille,

    1. Division of Clinical Pathology, Geneva University Hospital, Geneva, Switzerland
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  • Marlene Thomas,

    1. Oncology Division, Roche Pharma Research & Early Development, Penzberg, Germany
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  • Thomas A. McKee,

    1. Division of Clinical Pathology, Geneva University Hospital, Geneva, Switzerland
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  • Laura Rubbia-Brandt,

    1. Division of Clinical Pathology, Geneva University Hospital, Geneva, Switzerland
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  • Alexander Scherl,

    1. Division of Laboratory Medicine, Geneva University Hospital, Geneva, Switzerland
    2. Human Protein Sciences Department, University of Geneva, Geneva, Switzerland
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  • Pierre Lescuyer,

    1. Division of Laboratory Medicine, Geneva University Hospital, Geneva, Switzerland
    2. Human Protein Sciences Department, University of Geneva, Geneva, Switzerland
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  • Paul Cutler

    1. Translational Technologies and Bioinformatics, Pharma Research and Early Development, F. Hoffmann-La Roche AG, Basel, Switzerland
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Abstract

Proteomic analysis of tissues has advanced in recent years as instruments and methodologies have evolved. The ability to retrieve peptides from formalin-fixed paraffin-embedded tissues followed by shotgun or targeted proteomic analysis is offering new opportunities in biomedical research. In particular, access to large collections of clinically annotated samples should enable the detailed analysis of pathologically relevant tissues in a manner previously considered unfeasible. In this paper, we review the current status of proteomic analysis of formalin-fixed paraffin-embedded tissues with a particular focus on targeted approaches and the potential for this technique to be used in clinical research and clinical diagnosis. We also discuss the limitations and perspectives of the technique, particularly with regard to application in clinical diagnosis and drug discovery.

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