Integrated View of Baseline Protein Expression in Human Tissues

Area of Science:

• Proteomics
• Systems Biology
• Human Physiology

Background:

• Public proteomics datasets, particularly in PRIDE, have grown significantly.
• Large-scale data aggregation enables consistent, organism-wide protein abundance analysis.

Purpose of the Study:

• To reanalyze 24 public proteomics datasets from healthy individuals.
• To assess baseline protein abundance across 31 human organs and 67 distinct tissues.
• To identify organ-specific biological processes and pathways using gene ontology and pathway-enrichment analyses.

Main Methods:

• Reanalysis of 24 public human proteomics datasets.
• Aggregation of data from 3,119 mass spectrometry runs (498 samples, 489 individuals).
• Comparison of protein abundances across organs and with analogous studies.
• Gene ontology and pathway-enrichment analyses.

Main Results:

• Comprehensive baseline protein abundance data established for 31 human organs and 67 tissues.
• Identification of organ-specific enriched biological processes and pathways.
• Integration of proteomics data with transcriptomics data in the Expression Atlas resource.

Conclusions:

• Reanalysis of public proteomics data provides valuable insights into human protein expression.
• The integrated Expression Atlas resource enhances accessibility and visualization of proteomics data for life scientists.
• This work establishes a foundation for comparative analyses of protein abundance across human tissues.