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Proteoform Mapping Calls for a Combined Effort From Bottom-Up and Top-Down Proteomics
1Center for Proteomics and Metabolomics, Leiden University Medical Center, Leiden, the Netherlands.
Proteomics
|November 12, 2025
Summary
Top-down proteomics (TDP) enables detailed proteoform mapping for precision medicine. This study compares SDS-removal methods, crucial for robust TDP sample preparation and proteoform analysis.
Area of Science:
- Biochemistry
- Molecular Biology
- Genomics
Background:
- Proteomics reveals diverse proteoforms, offering biological insights beyond expression levels.
- Proteoform maps complement traditional analyses, enhancing understanding of human biology.
- Precision medicine requires high-throughput proteoform measurements for novel diagnostic and therapeutic tools.
Purpose of the Study:
- To evaluate different sodium dodecyl sulfate (SDS)-removal techniques for top-down proteomics (TDP).
- To provide technical guidance for optimizing sample preparation in TDP experiments.
- To support the development of proteoform-resolved data for precision medicine applications.
Main Methods:
- Comparative analysis of various SDS-removal methods.
- Application of these methods in the context of top-down proteomics (TDP) workflows.
- Mass spectrometry-based proteoform mapping.
Main Results:
- Identification of optimal SDS-removal strategies for TDP.
- Demonstration of improved proteoform mapping efficiency with specific methods.
- Establishment of technical guidance for sample preparation in TDP.
Conclusions:
- Effective SDS removal is critical for successful proteoform mapping in TDP.
- Optimized sample preparation enhances the robustness and throughput of TDP.
- Advancements in TDP sample preparation are essential for leveraging proteoform data in precision medicine.
