Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

The Tumor Microenvironment02:17

The Tumor Microenvironment

6.5K
Every normal cell or tissue is embedded in a complex local environment called stroma, consisting of different cell types, a basal membrane, and blood vessels. As normal cells mutate and develop into cancer cells, their local environment also changes to allow cancer progression. The tumor microenvironment (TME) consists of a complex cellular matrix of stromal cells and the developing tumor. The cross-talk between cancer cells and surrounding stromal cells is critical to disrupt normal tissue...
6.5K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

A queen odour mediates reproductive suppression in a eusocial mammal.

Nature·2026
Same author

SpatioTemporal Omics Consortium: a global effort for biological discovery across species, space and time.

Nature methods·2026
Same author

Large language models enable prognostic stratification of cancer patients using real-world clinical notes.

PLOS digital health·2026
Same author

Single nucleus RNA profiling reveals potential therapeutic vulnerabilities in sinonasal carcinomas.

NPJ precision oncology·2026
Same author

circVDJ-seq for T cell clonotype detection in single-cell and spatial multi-omics.

Genome medicine·2026
Same author

Towards robust foundation models for digital pathology.

Nature communications·2026

Related Experiment Video

Updated: May 14, 2025

A Label-Free Segmentation Approach for Intravital Imaging of Mammary Tumor Microenvironment
10:39

A Label-Free Segmentation Approach for Intravital Imaging of Mammary Tumor Microenvironment

Published on: May 24, 2022

2.3K

Combining spatial transcriptomics and ECM imaging in 3D for mapping cellular interactions in the tumor

Tancredi Massimo Pentimalli1, Simon Schallenberg2, Daniel León-Periñán3

  • 1Laboratory for Systems Biology of Regulatory Elements, Berlin Institute for Medical Systems Biology (BIMSB), Max-Delbrück-Centrum for Molecular Medicine in the Helmholtz Association (MDC), Berlin, Germany; Charité - Universitätsmedizin Berlin, corporate member of Freie Universität Berlin.

Cell Systems
|April 12, 2025
PubMed
Summary

This study integrates 3D spatial transcriptomics and ECM imaging to analyze tumor microenvironments. It reveals druggable targets for therapies by detailing cell interactions and ECM remodeling in lung cancer.

Keywords:
3Dcell-cell interactionsepithelial-to-mesenchymal transitionextracellular matrixnon small cell lung cancerpersonalized oncologysecond harmonic imagingspatial transcriptomicssystems medicinetumor microenvironment

More Related Videos

Visualization, Quantification, and Mapping of Immune Cell Populations in the Tumor Microenvironment
11:00

Visualization, Quantification, and Mapping of Immune Cell Populations in the Tumor Microenvironment

Published on: March 25, 2020

16.9K
Quantifying the Brain Metastatic Tumor Micro-Environment using an Organ-On-A Chip 3D Model, Machine Learning, and Confocal Tomography
09:53

Quantifying the Brain Metastatic Tumor Micro-Environment using an Organ-On-A Chip 3D Model, Machine Learning, and Confocal Tomography

Published on: August 16, 2020

6.8K

Related Experiment Videos

Last Updated: May 14, 2025

A Label-Free Segmentation Approach for Intravital Imaging of Mammary Tumor Microenvironment
10:39

A Label-Free Segmentation Approach for Intravital Imaging of Mammary Tumor Microenvironment

Published on: May 24, 2022

2.3K
Visualization, Quantification, and Mapping of Immune Cell Populations in the Tumor Microenvironment
11:00

Visualization, Quantification, and Mapping of Immune Cell Populations in the Tumor Microenvironment

Published on: March 25, 2020

16.9K
Quantifying the Brain Metastatic Tumor Micro-Environment using an Organ-On-A Chip 3D Model, Machine Learning, and Confocal Tomography
09:53

Quantifying the Brain Metastatic Tumor Micro-Environment using an Organ-On-A Chip 3D Model, Machine Learning, and Confocal Tomography

Published on: August 16, 2020

6.8K

Area of Science:

  • Oncology
  • Molecular Biology
  • Bioinformatics

Background:

  • Tumors are complex ecosystems influenced by cell-cell and extracellular matrix (ECM) interactions within 3D cellular neighborhoods (CNs).
  • Current molecular profiling methods often miss these crucial spatial interactions and ECM dynamics.
  • Single-cell spatial transcriptomics (ST) typically analyzes 2D sections, lacking comprehensive ECM readouts.

Purpose of the Study:

  • To develop and apply an integrated 3D spatial transcriptomics and ECM imaging approach for detailed CN profiling.
  • To systematically quantify molecular states, cell-cell interactions, and ECM remodeling in a clinical lung carcinoma.
  • To identify novel therapeutic targets within the tumor microenvironment.

Main Methods:

  • Integration of 3D spatial transcriptomics (ST) with ECM imaging.
  • Analysis of serial tissue sections from a clinical lung carcinoma sample.
  • Systematic quantification of molecular phenotypes, cell-cell interactions, and ECM remodeling within CNs.

Main Results:

  • The integrative analysis successfully mapped molecular states, cell-cell interactions, and ECM remodeling in 3D CNs.
  • Identified known mechanisms of immune escape and tumor invasion.
  • Revealed several potentially druggable drivers of tumor progression specific to the patient.

Conclusions:

  • In-depth 3D CN profiling of clinical samples is feasible and provides critical insights into the tumor microenvironment.
  • This approach can uncover therapeutic vulnerabilities missed by traditional methods.
  • Highlights the potential for microenvironment-directed therapies informed by detailed spatial analysis.