Pharmaceutical Sciences Faculty Publications

Unravelling the Proteome of Formalin-Fixed Paraffin-Embedded Tissue

Document Type

Article

Publication Date

6-1-2006

Journal Title

Briefings in Functional Genomics & Proteomics

ISSN

1473-9550

Volume

5

Issue

2

First Page

169

Last Page

175

DOI

10.1093/bfgp/ell017

PubMed ID

16772271

Abstract

Biofluid detectable biomarkers that originate at the site of diseased tissues would be advantageous, in that, they may provide mechanistic information concerning the manifestation and progression of the disease. Unfortunately, tissue biopsies are precious samples that can generally be acquired in small amounts due to the invasive nature of the sample collection. One of the foundations of pathological diagnosis for decades has been from formalin-fixed paraffin-embedded (FFPE) tissues, of which a vast archive exists worldwide. These tissues have also been widely used for immunohistochemistry and in situ hybridization studies examining for expression of specific proteins or transcripts. Unfortunately, the ability to analyse FFPE tissues using mass spectrometry (MS) has been essentially non-existent until recently. In this review, methods that allow the extraction of peptides from FFPE tissues and their proteomic analysis using MS are described. The ability to identify the proteins extracted from FFPE tissues allows comparative analyses that enable the potential discovery of novel biomarkers at the site of the diseased tissue.

Keywords

Biomarkers, fixatives, formaldehyde, lasers, mass spectrometry, microdissection, neoplasm proteins, paraffin embedding, prostatic neoplasms, proteome, tissue fixation

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