Impact of routinely employed procedures for tissue processing on the proteomic analysis of formalin‐fixed paraffin‐embedded tissue
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Summary
This work focuses on three different processing methods commonly used in large European pathology institutes for FFPE tissue processing.
- Type
- article
- Published
- 2014-10-01
- Cited by
- 39
- References
- 26
- OpenAlex
- https://openalex.org/W2143156810
- Semantic Scholar
- https://api.semanticscholar.org/CorpusID:10410854
Keywords
Proteomics, Proteome, Computational biology, Biology, Pathology
References
- Development of efficient protein extraction methods for shotgun proteome analysis of formalin-fixed tissues.
- A model for random sampling and estimation of relative protein abundance in shotgun proteomics.
- Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics.
- Impact of pre‐analytical factors on the proteomic analysis of formalin‐fixed paraffin‐embedded tissue
- EVALUATION OF ARCHIVAL TIME ON SHOTGUN PROTEOMICS OF FORMALIN-FIXED AND PARAFFIN-EMBEDDED TISSUES
- Proteome, phosphoproteome, and N-glycoproteome are quantitatively preserved in formalin-fixed paraffin-embedded tissue and analyzable by high-resolution mass spectrometry.
- A statistical model for identifying proteins by tandem mass spectrometry.
- Proteomic workflow for analysis of archival formalin‐fixed and paraffin‐embedded clinical samples to a depth of 10 000 proteins
- The APEX Quantitative Proteomics Tool: Generating protein quantitation estimates from LC-MS/MS proteomics results
- High recovery FASP applied to the proteomic analysis of microdissected formalin fixed paraffin embedded cancer tissues retrieves known colon cancer markers.
- Shotgun proteomics of archival triple‐negative breast cancer samples
- PANTHER version 7: improved phylogenetic trees, orthologs and collaboration with the Gene Ontology Consortium
- Empirical statistical model to estimate the accuracy of peptide identifications made by MS/MS and database search.
- Equivalence of Protein Inventories Obtained from Formalin-fixed Paraffin-embedded and Frozen Tissue in Multidimensional Liquid Chromatography-Tandem Mass Spectrometry Shotgun Proteomic Analysis
- Whole gel processing procedure for GeLC-MS/MS based proteomics
- Improved Protein Extractionand Protein Identification from Archival Formalin-fixed Paraffin-embedded Human Aortas
- Extensive quantitative remodeling of the proteome between normal colon tissue and adenocarcinoma
- TANDEM: matching proteins with tandem mass spectra.
- Trypsin Cleaves Exclusively C-terminal to Arginine and Lysine Residues*S
- Protein Extraction from Formalin-fixed, Paraffin-embedded Tissue Sections: Quality Evaluation by Mass Spectrometry
Cited by
- A non-instrument-based method for the analysis of formalin-fixed paraffin-embedded human spinal cord via matrix-assisted laser desorption/ionisation imaging mass spectrometry.
- Recent findings from the human proteome project: opening the mass spectrometry toolbox to advance cancer diagnosis, surveillance and treatment
- Proteomic developments in the analysis of formalin-fixed tissue.
- Formalin‐fixed paraffin‐embedded tissue: The holy grail of clinical proteomics?
- Using tissue samples for proteomic studies—Critical considerations
- Impact of cathepsin B on the interstitial fluid proteome of murine breast cancers.
- Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses
- Formalin-Fixed, Paraffin-Embedded Tissues (FFPE) as a Robust Source for the Profiling of Native and Protease-Generated Protein Amino Termini*
- Cathepsin A inhibition attenuates myocardial infarction-induced heart failure on the functional and proteomic levels
- Proteomic analysis of neurons microdissected from formalin-fixed, paraffin-embedded Alzheimer’s disease brain tissue
- A Protocol for Large-Scale Proteomic Analysis of Microdissected Formalin Fixed and Paraffin Embedded Tissue.
- Proteomic Differences in Amyloid Plaques in Rapidly Progressive and Sporadic Alzheimer’s Disease
- System-Wide Profiling of Protein Amino Termini from Formalin-Fixed, Paraffin-Embedded Tissue Specimens for the Identification of Novel Substrates.
- Insights into autosomal dominant polycystic kidney disease by quantitative mass spectrometry-based proteomics
- Proteomic Based Approaches for Differentiating Tumor Subtypes
- Assessment of molecular differentiation in FFPE colon adenocarcinoma tissues using PCA analysis of MALDI IMS spectral data
- Quantitative proteomic analysis of optimal cutting temperature (OCT) embedded core-needle biopsy of lung cancer
- Proteome profiling of clear cell renal cell carcinoma in von Hippel-Lindau patients highlights upregulation of Xaa-Pro aminopeptidase-1, an anti-proliferative and anti-migratory exoprotease
- Identification of tissue damage, extracellular matrix remodeling and bacterial challenge as common mechanisms associated with high-risk cutaneous squamous cell carcinomas.
- Proteomic Characterization of Prostate Cancer to Distinguish Nonmetastasizing and Metastasizing Primary Tumors and Lymph Node Metastases
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