Systematic Evaluation of Platelet-Free Plasma Proteomics Enrichment Methods

Proteonano enrichment confidently identified 299 proteins with mapped blood concentrations below 10^6 pg/L, demonstrating effectiveness for low-abundance proteins. Salem Al Siblani evaluated seven depletion and enrichment technologies for plasma proteomics using an Orbitrap Astral instrument with DIA, assessing proteomic depth, quantification precision, and functional analysis. The dataset, last updated in March 2026, contains results showing immunodepletion yielded the highest proteome coverage in the moderate abundance range with 660 confident proteins.

Use Cases

• Benchmarking protein enrichment technologies based on reported proteomic depth and protein identification counts.
• Evaluating quantification precision based on the reported median coefficients of variation for methods like MagNet-SAX (13%).
• Selecting sample preparation methods for low-abundance protein analysis based on the performance metrics for Proteonano and combined methods.
• Correlating enrichment method outputs with neat plasma profiles based on the 93% correlation reported for ENRICHplus.

Strengths

• Includes specific performance metrics, such as 299 proteins identified below 10^6 pg/L by Proteonano and 660 confident proteins from immunodepletion.
• Compares seven distinct technologies (e.g., perchloric acid depletion, ProteoMiner, MagNet-SAX) on multiple criteria.
• Reports high repeatability with specific median coefficients of variation, such as 13% for MagNet-SAX.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Data is specific to platelet-free plasma; results may deviate from platelet-rich plasma as noted in the description.

Provenance

Source

figshare, author Salem Al Siblani.

Collection Method

Experimental evaluation using an Orbitrap Astral instrument with Data-Independent Acquisition (DIA) on platelet-free plasma samples.

Time Range

Experimental timeframe not specified; dataset metadata updated March 2026.

Freshness

Last updated 2026-03-17 14:05:24; freshness should be verified.

Geography

Spatial coverage not specified.