Related Experiment Video

Updated: Jan 19, 2026

Cancer-Associated Fibroblasts from Mouse Mammary Tumors as Tools for Molecular and Computational Studies
09:01

Cancer-Associated Fibroblasts from Mouse Mammary Tumors as Tools for Molecular and Computational Studies

Published on: July 3, 2025

868

Next-generation computational tools for interrogating cancer immunity

Francesca Finotello1, Dietmar Rieder1, Hubert Hackl1

  • 1Biocenter, Institute of Bioinformatics, Medical University of Innsbruck, Innsbruck, Austria.

Nature Reviews. Genetics
|September 14, 2019
PubMed

Insights

Computational tools are essential for analyzing complex cancer immunity data generated by new technologies. This review guides researchers in selecting appropriate methods for understanding cancer-immune interactions and advancing oncology treatments.

Area of Science:

  • Oncology
  • Immunology
  • Bioinformatics

Background:

  • Immune checkpoint blockers have transformed cancer therapy, driving research into cancer-immune interactions.
  • Advanced technologies like single-cell sequencing and mass cytometry generate complex, multidimensional data on cancer immunity.

Purpose of the Study:

  • To review computational tools for analyzing cancer immunity data.
  • To discuss the advantages and limitations of different computational methods.
  • To provide guidelines for selecting appropriate tools for cancer research.

Main Methods:

  • Review of existing computational tools and software.
  • Analysis of data processing, analysis, and visualization techniques.
  • Comparative assessment of method capabilities for cancer immunity studies.

Main Results:

  • Identification of key computational tools for cancer immunity research.
  • Evaluation of the strengths and weaknesses of various analytical approaches.
  • Framework for selecting computational methods based on research needs.

Conclusions:

  • Effective computational tools are crucial for interpreting complex cancer immunity data.
  • Careful selection of methods is necessary to advance our understanding of cancer-immune interactions.
  • This review aids researchers in navigating the computational landscape for cancer immunotherapy research.

More Related Videos

Culture of Bladder Cancer Organoids as Precision Medicine Tools08:39

Culture of Bladder Cancer Organoids as Precision Medicine Tools

Published on: December 28, 2021

5.4K
Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer08:20

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer

Published on: May 21, 2019

6.0K

Related Concept Videos

Cancer-Associated Fibroblasts from Mouse Mammary Tumors as Tools for Molecular and Computational Studies09:01

Cancer-Associated Fibroblasts from Mouse Mammary Tumors as Tools for Molecular and Computational Studies

This protocol outlines methods to culture, manipulate, and analyze murine CAFs, including in vitro/in vivo functional assays, transcriptomics, and computational analysis. Moreover, it describes a web-based platform developed to analyze the publicly available transcriptomes of laser capture micro-dissected stromal and epithelial components from a collection of human breast cancer...
868
Culture of Bladder Cancer Organoids as Precision Medicine Tools08:39

Culture of Bladder Cancer Organoids as Precision Medicine Tools

Patient-derived organoids (PDOs) are a powerful tool in translational cancer research, reflecting both the genetic and phenotypic heterogeneity of the disease and response to personalized anti-cancer therapies. Here, a consolidated protocol to generate human primary bladder cancer PDOs in preparation for the evaluation of phenotypic analyses and drug responses is detailed.
5.4K
Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer08:20

Using Microarrays to Interrogate Microenvironmental Impact on Cellular Phenotypes in Cancer

The purpose of the method presented here is to show how microenvironment microarrays (MEMA) can be fabricated and used to interrogate the impact of thousands of simple combinatorial microenvironments on the phenotype of cultured...
6.0K
Computational Reconstruction of Pancreatic Islets as a Tool for Structural and Functional Analysis07:58

Computational Reconstruction of Pancreatic Islets as a Tool for Structural and Functional Analysis

In this protocol, the pancreatic islets are reconstructed and analyzed using computational algorithms implemented in a dedicated multiplatform...
1.9K
Co-Culture In Vitro Systems to Reproduce the Cancer-Immunity Cycle12:19

Co-Culture In Vitro Systems to Reproduce the Cancer-Immunity Cycle

Here, we detail a simple, fast, and reliable multiparametric flow cytometry- and tumor-on-a-chip-assisted protocol to monitor and characterize the steps constituting the cancer-immunity cycle. Indeed, a thorough understanding of the interplays between cancer and immune cells provides critical insights to outsmart tumors and guide clinical...
1.9K
All-optical Mechanobiology Interrogation of Yes-associated Protein in Human Cancer and Normal Cells using a Multi-functional System09:55

All-optical Mechanobiology Interrogation of Yes-associated Protein in Human Cancer and Normal Cells using a Multi-functional System

This paper presents a detailed stepwise protocol on how to utilize an integrated multi-functional and user-programmable system that enables automatic multi-channel imaging and mechanobiological analysis to elucidate the mechano-sensitivity of Yes-associated protein (YAP).
3.3K