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Delineating protein biomarkers for gastric cancers: A catalogue of mass spectrometry-based markers and assessment of their suitability for targeted proteomics applications

  • 0Center for Systems Biology and Molecular Medicine, Yenepoya Research Centre, Yenepoya (Deemed to be University), Mangalore 575018, India.
Journal of Proteomics +

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July 24, 2024

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July 24, 2024

View abstract on PubMed

Summary

This summary is machine-generated.

This study compiles over 6800 gastric cancer proteins from proteomics data, identifying robust diagnostic and prognostic biomarker panels. The developed Gastric Cancer Proteomics DataBase (GCPDB) aids researchers in advancing targeted proteomics for clinical applications.

Area Of Science

  • Proteomics
  • Biomarker Discovery
  • Gastric Cancer Research

Background

  • Gastric cancer (GC) poses a significant global health challenge.
  • Mass spectrometry-based proteomics has identified numerous differentially regulated proteins in GC.
  • Clinical utility of these protein biomarkers is often limited by data accessibility and validation.

Purpose Of The Study

  • To consolidate and analyze existing proteomics data for gastric cancer.
  • To identify robust protein biomarker panels for GC diagnosis and prognosis.
  • To create a centralized, accessible resource for proteomics researchers.

Main Methods

  • Congregated over 6800 differentially regulated proteins from GC proteomics studies.
  • Recorded details on mass spectrometry platforms, protein identifiers, sample characteristics, and validation status.
  • Developed the Protein Biomarker Matrix for Gastric Cancer (PBMGC) and catalogued data in GCPDB.
  • Identified and characterized proteotypic tryptic peptides for targeted assays.

Main Results

  • Identified robust tissue, serum, and urine diagnostic and prognostic protein biomarker panels for GC.
  • Catalogued data for 6800+ proteins, including mass spectrometry platforms and clinical details.
  • Characterized 5631 proteins with suitable tryptic peptides for multiple reaction monitoring (MRM) assays.
  • Established the Gastric Cancer Proteomics DataBase (GCPDB) for data sharing and community contribution.

Conclusions

  • The compiled data and developed resources facilitate the clinical translation of GC protein biomarkers.
  • Targeted proteomics methods, supported by resources like GCPDB, are crucial for advancing GC diagnostics and prognostics.
  • GCPDB serves as a valuable platform for proteomics researchers, promoting data sharing and collaborative research in gastric cancer.

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