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Related Experiment Video

Updated: Sep 1, 2025

A Multimodal Imaging Framework to Advance Phenotyping of Living Label-free Breast Cancer Cells

A Multimodal Imaging Framework to Advance Phenotyping of Living Label-free Breast Cancer Cells

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A robust experimental and computational analysis framework at multiple resolutions, modalities and coverages.

M Tran¹, S Yoon², M Teoh^1,3

¹Institute for Molecular Bioscience, The University of Queensland, Brisbane, QLD, Australia.

Frontiers in Immunology

|August 15, 2022

Summary

This summary is machine-generated.

This study presents a new framework for discovering cancer cell communication pathways using integrated spatial transcriptomics and multiplex protein staining. This approach enhances the identification of potential drug targets for cancer immunotherapy.

Keywords:

cell-cell interaction data integration interaction analysis skin cancer spatial

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Area of Science:

Oncology
Immunology
Bioinformatics

Background:

Understanding cancer-immune cell communication is crucial for developing effective cancer immunotherapies.
Identifying molecular mechanisms and druggable targets requires studying cellular crosstalk within the tumor microenvironment.

Purpose of the Study:

To develop and evaluate an integrated experimental and analytical framework for genome-wide discovery and validation of ligand-receptor interactions in solid tumors.
To enable the study of cancer-immune cell communication across whole tumor sections without dissociation.

Main Methods:

Integrated assessment of single-cell RNA sequencing, spatial transcriptomics, RNAscope, and Opal Polaris multiplex protein staining.
Development of STRISH (Spatial TRanscriptomic In Situ Hybridization) computational method for analyzing multimodal spatial data.
In-situ validation of cell-cell interactions in basal cell carcinoma and squamous cell carcinoma models.

Main Results:

Inference of cell-cell interactions using scRNA-seq data can lead to false positives.
Spatial transcriptomics reduces false discoveries but may miss lowly expressed interactions.
RNAscope and Polaris, coupled with STRISH, provide sensitive and validated identification of ligand-receptor interactions in situ.

Conclusions:

The integrated framework and STRISH method enable accurate discovery and validation of cell-cell interactions within intact tumor tissues.
This approach is expected to be widely applicable for identifying therapeutic targets in various solid cancers.