HYPERsol: High-Quality Data from Archival FFPE Tissue for Clinical Proteomics

Marchione, D. M., Ilieva, I., Devins, K., Sharpe, D., Pappin, D. J., Garcia, B. A., Wilson, J. P., Wojcik, J. B. (January 2020) HYPERsol: High-Quality Data from Archival FFPE Tissue for Clinical Proteomics. J Proteome Res, 19 (2). pp. 973-983. ISSN 1535-3893 (Public Dataset)

URL: https://www.ncbi.nlm.nih.gov/pubmed/31935107
DOI: 10.1021/acs.jproteome.9b00686


Massive formalin-fixed, paraffin-embedded (FFPE) tissue archives exist worldwide, representing an invaluable resource for clinical proteomics research. However, current protocols for FFPE proteomics lack standardization, efficiency, reproducibility, and scalability. Here we present high-yield protein extraction and recovery by direct solubilization (HYPERsol), an optimized workflow using ultrasonication and S-Trap sample processing that enables proteome coverage and quantification from FFPE samples comparable to that achieved from flash-frozen tissue (average R = 0.936). When applied to archival samples, HYPERsol resulted in high-quality data from FFPE specimens in storage for up to 17 years, and may enable the discovery of new immunohistochemical markers.

Item Type: Paper
Subjects: bioinformatics
bioinformatics > genomics and proteomics
Investigative techniques and equipment > staining techniques
CSHL Authors:
Communities: CSHL Cancer Center Program > Cellular Communication in Cancer Program
CSHL labs > Pappin lab
Depositing User: Adrian Gomez
Date: 14 January 2020
Date Deposited: 16 Jan 2020 16:10
Last Modified: 01 Feb 2024 16:07
PMCID: PMC7515636
Related URLs:
Dataset ID:
  • Supporting Information is available at https://pubs.acs.org/doi/10.1021/acs.jproteome.9b00686.
URI: https://repository.cshl.edu/id/eprint/38907

Actions (login required)

Administrator's edit/view item Administrator's edit/view item
CSHL HomeAbout CSHLResearchEducationNews & FeaturesCampus & Public EventsCareersGiving