Work

Protocol for spatial proteomic profiling of tonsil cancer microenvironments using multiplexed imaging-powered deep visual proteomics

Year: 2025

Type: article

Abstract: Here, we present a protocol for spatial proteomic profiling of the tumor microenvironment in tonsil cancer using multiplexed imaging-powered deep visual proteomics (mipDVP). We describe steps for automated 22-plex immunofluorescence staining and imaging on formalin-fixed paraffin-embedded (FFPE) tissue sections, automated single-cell laser microdissection, and single-cell-type mass spectrometry. This workflow enables the spatially resolved isolation of distinct cell populations for proteomic analysis. We optimized this protocol for studying tumor-immune interactions, where it facilitates the systematic identification of biomarkers and functional cellular networks. For complete details on the use and execution of this protocol, please refer to Zheng et al. 1

Source: STAR Protocols

DOI: 10.1016/j.xpro.2025.103901

Authors: Xiang Zheng, Andreas Mund, Matthias Mann

Institutions: University of Copenhagen, Aarhus University, Novo Nordisk Foundation, BioInnovation Institute, Max Planck Institute of Biochemistry

Language: English

Topic: Advanced Proteomics Techniques and Applications

Subfield: Spectroscopy

Field: Chemistry

Domain: Physical Sciences

SDG: Good health and well-being

Open Access status: gold

Estimated APC paid: $1,550