title: Qualitative and quantitative proteomic analysis of formalin-fixed paraffin-embedded (FFPE) tissue.
abstract: Formalin-fixed, paraffin-embedded (FFPE) tissue has recently gained interest as an alternative to fresh/frozen tissue for retrospective protein biomarker discovery. However, during the formalin fixation proteins undergo degradation and cross-linking, making conventional protein analysis technologies challenging. Cross-linking is even more challenging when quantitative proteome analysis of FFPE tissue is planned. The use of conventional protein labeling technologies on FFPE tissue has turned out to be problematic as the lysine residue labeling targets are frequently blocked by the formalin treatment. We have established a qualitative and quantitative proteomics analysis technique for FFPE tissues that combines label-free proteomic analysis with optimized protein extraction and separation conditions.
authors.affiliation: Institute of Radiation Biology, Helmholtz Zentrum München, German Research Center for Environmental Health, Ingolstaedter Landstrasse 1, Neuherberg, 85764, Germany.
authors.forename: Omid
authors.initials: O
authors.lastname: Azimzadeh
authors.forename: Michael J
authors.initials: MJ
authors.lastname: Atkinson
authors.forename: Soile
authors.initials: S
authors.lastname: Tapio
mesh_terms: D015415:Biomarkers; D006801:Humans; D013058:Mass Spectrometry; D011506:Proteins / Q000737:chemistry* / Q000302:isolation & purification*; D020543:Proteome / Q000378:metabolism*; D040901:Proteomics / Q000379:methods*
chemical_list: D015415:Biomarkers; D011506:Proteins; D020543:Proteome