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

Pauly, Frida LU ; Dexlin Mellby, Linda LU ; Ek, Sara LU ; Ohlin, Mats LU ; Olsson, Niclas LU ; Jirström, Karin LU ; Dictor, Michael LU ; Schoenmakers, Saskia; Borrebaeck, Carl LU and Wingren, Christer LU (2013) In Journal of Proteome Research 12(12). p.5943-5953
Abstract
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... (More)
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. (Less)
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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
antibody microarrays, FFPE, protein expression profiling
in
Journal of Proteome Research
volume
12
issue
12
pages
5943 - 5953
publisher
The American Chemical Society
external identifiers
  • wos:000328231300052
  • scopus:84890055112
ISSN
1535-3893
DOI
10.1021/pr4003245
language
English
LU publication?
yes
id
f909ae9f-5b1c-4a0a-9377-733f7c103d5d (old id 4272433)
date added to LUP
2014-02-10 10:36:31
date last changed
2019-04-02 01:20:21
@article{f909ae9f-5b1c-4a0a-9377-733f7c103d5d,
  abstract     = {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.},
  author       = {Pauly, Frida and Dexlin Mellby, Linda and Ek, Sara and Ohlin, Mats and Olsson, Niclas and Jirström, Karin and Dictor, Michael and Schoenmakers, Saskia and Borrebaeck, Carl and Wingren, Christer},
  issn         = {1535-3893},
  keyword      = {antibody microarrays,FFPE,protein expression profiling},
  language     = {eng},
  number       = {12},
  pages        = {5943--5953},
  publisher    = {The American Chemical Society},
  series       = {Journal of Proteome Research},
  title        = {Protein Expression Profiling of Formalin-Fixed Paraffin-Embedded Tissue Using Recombinant Antibody Microarrays},
  url          = {http://dx.doi.org/10.1021/pr4003245},
  volume       = {12},
  year         = {2013},
}