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Protein Expression Profiling of Formalin-Fixed Paraffin-Embedded Tissue Using Recombinant Antibody Microarrays

  • Frida Pauly
  • Linda Dexlin Mellby
  • Sara Ek
  • Mats Ohlin
  • Niclas Olsson
  • Karin Jirström
  • Michael Dictor
  • Saskia Schoenmakers
  • Carl Borrebaeck
  • Christer Wingren
Publishing year: 2013
Language: English
Pages: 5943-5953
Publication/Series: Journal of Proteome Research
Volume: 12
Issue: 12
Document type: Journal article
Publisher: The American Chemical Society

Abstract english

Proteomics, the large-scale analysis of proteins, is a rapidly evolving field with an increasing number of key clinical applications, such as diagnosis, prognosis, and classification. In order to generate complete protein expression profiles, or protein atlases, any crude sample format must be addressable in a rapid, multiplex, and sensitive manner. A common and clinically central sample format, formalin-fixed, paraffin-embedded (FFPE) tissue material, holds great potential as a source for disease-associated biomarker signatures. However, despite major efforts, extraction and subsequent profiling of proteins from FFPE tissue has proven to be challenging. In this proof-of-concept study, we have demonstrated for the first time that proteins could be extracted, labeled, and subsequently profiled in a multiplex, sensitive, and reproducible manner using recombinant scFv antibody microarrays. Thus, we have added FFPE samples to the list of sample formats available for high-throughput analysis by affinity proteomics, paving the way for the next generation of biomarker-driven discovery projects.


  • Cancer and Oncology
  • antibody microarrays
  • FFPE
  • protein expression profiling


  • ISSN: 1535-3893
Carl Borrebaeck
E-mail: carl [dot] borrebaeck [at] immun [dot] lth [dot] se


Department of Immunotechnology




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