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Phosphopeptide Enrichment Coupled with Label-free Quantitative Mass Spectrometry to Investigate the Phosphoproteome in Prostate Cancer
Published on: August 2, 2018
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A prostate cancer tissue specific spectral library for targeted proteomic analysis
Rui Sun1,2,3,4, Mengge Lyu2,3,4, Shuang Liang2,3,4
1Zhejiang University, Hangzhou, Zhejiang, China.
Proteomics
|November 20, 2021
Summary
This study developed a comprehensive prostate tissue spectral library using mass spectrometry. This resource aids in accurately quantifying proteins in prostate cancer diagnostics and research using formalin-fixed paraffin-embedded tissues.
Area of Science:
- Proteomics
- Cancer Research
- Biomarker Discovery
Background:
- Prostate cancer is a prevalent malignancy globally.
- Mass spectrometry-based targeted proteomics offers powerful protein quantification from various tissue types, including FFPE and frozen biopsies.
- Accurate protein quantification is crucial for understanding prostate cancer biology and developing diagnostic tools.
Purpose of the Study:
- To create a comprehensive, tissue-specific spectral library for targeted proteomic analysis of prostate tissue.
- To enhance the capabilities of mass spectrometry in quantifying proteins within prostate cancer samples.
- To provide a valuable resource for researchers studying prostate cancer.
Main Methods:
- Utilized formalin-fixed paraffin-embedded (FFPE) benign and malignant prostate tissue samples.
- Employed pressure cycling technology (PCT)-assisted sample preparation for peptide extraction.
- Fractionated peptide samples using high-pH reversed-phase liquid chromatography (RPLC).
- Performed data-dependent acquisition (DDA) mass spectrometry (MS) analysis on a TripleTOF 6600 instrument.
Main Results:
- Constructed a spectral library encompassing 108,533 precursors, 84,198 peptides, and 9,384 unique proteins at a 1% false discovery rate (FDR).
- The library is specific to prostate tissue, offering targeted quantification capabilities.
- Demonstrated the practical application and utility of the developed library in analyzing prostate specimens.
Conclusions:
- The developed spectral library is a significant resource for targeted proteomic analysis of prostate tissues.
- This tool facilitates improved protein quantification in both benign and malignant prostate cancer samples.
- The library holds potential for advancing prostate cancer research, diagnostics, and biomarker discovery.
