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A versatile platform for sequential glyco-, phospho-, and proteomics with multi-PTMs integration.

Xuefang Dong1,2, Fangfang Xiong1,2, Guangzhu Du1,3

  • 1State Key Laboratory of Phytochemistry and Natural Medicines, Dalian Institute of Chemical Physics, Chinese Academy of Sciences, Dalian, P. R. China.

Nature Communications
|January 28, 2026
PubMed
Summary
This summary is machine-generated.

A new platform, MuPPE, enables rapid, reproducible multi-omic analysis of post-translational modifications (PTMs). This accelerates drug discovery and biomarker identification by analyzing glycoproteome, phosphoproteome, and proteome simultaneously.

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Area of Science:

  • Biochemistry
  • Proteomics
  • Systems Biology

Background:

  • Multi-omic analysis of post-translational modifications (PTMs) is crucial for understanding drug mechanisms, biomarker discovery, and therapeutic target identification.
  • Current methods for simultaneous multi-level PTMs analysis are often time-consuming, labor-intensive, and lack reproducibility.

Purpose of the Study:

  • To develop an integrated platform, MuPPE (Multi-level PTMs-Proteomic Enrichment), for sequential analysis of glycoproteome, phosphoproteome, and proteome from single samples.
  • To improve the efficiency, reproducibility, and coverage of multi-omic PTMs analysis.

Main Methods:

  • The MuPPE platform integrates protein aggregation capture, on-bead digestion, and tandem enrichment.
  • Enables sequential analysis of glycoproteome, phosphoproteome, and proteome.

Main Results:

  • MuPPE demonstrated superior reproducibility (12.3% CV) compared to conventional methods (17.6% CV).
  • Processing time was significantly reduced by 87.5% (4 hours vs. 32 hours).
  • Enhanced coverage of serum glycopeptides and brain phosphopeptides was observed.

Conclusions:

  • MuPPE is a transformative tool for advancing multi-omics insights in precision medicine and disease research.
  • The platform facilitates the study of tissue-specific PTMs remodeling, brain barrier dysfunction, and drug-induced PTMs crosstalk.