Benchmarking Plasma Proteomics Workflows and Correlation to Clinical Protein Assays

A study comparing prominent enrichment and depletion workflows for plasma proteomics using mass spectrometry. The dataset, authored by Anders Handrup Kverneland and last updated in May 2026, includes comparisons of platelet-poor plasma, platelet-rich plasma, and serum samples. Results show differences in proteome quantification between depletion and extracellular vesicle enrichment methods, with correlations to 10 clinical routine protein measurements.

Use Cases

• Compare the performance of Top14 depletion and acid precipitation workflows based on the described quantification differences.
• Evaluate the correlation between proteomics data and clinical Cobas system measurements for proteins like C-reactive protein and lipoprotein(a).
• Assess the suitability of extracellular vesicle enrichment methods (bead-based or ultracentrifugation) for large cohort studies based on described robustness concerns.
• Analyze the relationship between platelet-poor plasma, platelet-rich plasma, and serum samples across different proteomic workflows.

Strengths

• Compares multiple prominent plasma proteomics workflows including Top14 depletion, acid precipitation, bead-based enrichment, and ultracentrifugation.
• Includes correlation analysis for 10 protein measurements performed by clinical routine processes on a Cobas system.
• File size is 4.2 MB, indicating a focused and likely manageable dataset for analysis.

Limitations

• Row count is unknown, which may limit suitability assessment for large-scale analyses.
• Column-level documentation is absent; field semantics must be inferred after download.
• Description metadata is limited; actual data quality requires manual inspection after download.

Provenance

Source

figshare

Collection Method

Experimental comparison of mass spectrometry workflows using platelet-poor plasma, platelet-rich plasma, and serum samples.

Freshness

Last updated 2026-05-02 14:04:09; freshness should be verified.