A Comprehensive Urine Proteome Database Generated From Patients With Various Renal Conditions and Prostate Cancer

Area of Science:

• Proteomics
• Biomarker Discovery
• Clinical Chemistry

Background:

• Urine proteins are valuable biomarkers for disease diagnosis and monitoring.
• A comprehensive urine proteome database is crucial for identifying new biomarkers.

Purpose of the Study:

• To create a reference urine proteome database from diverse patient cohorts.
• To facilitate the discovery of potential urine protein biomarkers.

Main Methods:

• 2D LC-MS/MS proteome profiling of urine samples from healthy individuals, renal transplant patients (acute rejection and stable graft), non-specific proteinuria patients, and prostate cancer patients.
• Data analysis included false discovery rate assessment, gene ontology analysis, and Ingenuity Pathway Analysis.

Main Results:

• Identified ~2,200 unique proteins and ~28,000 unique peptides with <0.5% FDR.
• Over one-third of identified proteins were plasma membrane or extracellular proteins.
• Discovered 349 potential biomarkers and identified 43% of known cluster of differentiation (CD) proteins.
• Approximately 400 proteins were unique to this study compared to previous research, including potential disease-associated proteins like serpin B3, renin receptor, and periostin.

Conclusions:

• The generated urine proteome database provides valuable data for future biomarker discovery and validation studies.
• This resource can significantly advance the understanding and diagnosis of various diseases through urine protein analysis.