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Related Experiment Video

Updated: Jun 2, 2026

Proteomic Profile of EPS-Urine through FASP Digestion and Data-Independent Analysis

Published on: May 8, 2021

Fast proteomics with dia-PASEF and analytical flow-rate chromatography.

Lukasz Szyrwiel¹, Christoph Gille^1,2, Michael Mülleder²

¹Department of Biochemistry, Charité - Universitätsmedizin Berlin, Berlin, Germany.

|June 8, 2023

Summary

This summary is machine-generated.

This study introduces a high-throughput proteomic method combining chromatography and ion mobility, analyzing up to 400 samples daily. The approach enables precise protein quantification from small samples, aiding systems biology and disease research.

Keywords:

alternating column regeneration analytical flow-rate chromatography dia-PASEF high-throughput proteomics plasma proteomics

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Last Updated: Jun 2, 2026

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Published on: May 8, 2021

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Area of Science:

Proteomics
Biomedical Research
Systems Biology

Background:

High-throughput proteomic experiments are crucial for advancing systems biology and biomedical research.
Current methods face limitations in throughput and sample requirements.
There is a need for cost-effective and accessible proteomic platforms.

Purpose of the Study:

To develop a high-throughput proteomic workflow for analyzing limited sample amounts.
To achieve high-quality proteomic data with improved speed and efficiency.
To enable new approaches in systems biology and clinical research.

Main Methods:

Combination of analytical flow rate chromatography with ion mobility separation of peptide ions.
Utilizing data-independent acquisition (DIA) and the DIA-NN software suite for data analysis.
Employing a workflow capable of processing up to 400 samples per day.

Main Results:

Quantification of 5211 proteins from 2 μg of mammalian cell-line standard with high accuracy and precision.
Successful analysis of COVID-19 patient plasma samples using short (3-min) chromatographic gradients.
Demonstrated comprehensive profiling of the COVID-19 plasma proteome.

Conclusions:

The developed high-throughput proteomic method significantly enhances experimental efficiency and accessibility.
The workflow provides a comprehensive view of proteomes from limited samples, facilitating biomarker discovery.
This approach supports patient stratification and advances understanding of disease mechanisms, such as in COVID-19.