HYPERsol: flash-frozen results from archival FFPE tissue for clinical proteomics
Marchione, D. M.; Ilieva, I.; Garcia, B. A.; Pappin, D. J.; Wilson, J. P.; Wojcik, J. B.
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Massive formalin-fixed, paraffin-embedded (FFPE) tissue archives exist worldwide, representing a potential gold mine 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 adaptive-focused acoustics (AFA) 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).
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