Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

T Cell Activation and Clonal Selection

T Cell Activation and Clonal Selection

T cells are integral to our adaptive immune system, recognizing and effectively responding to foreign antigens. T cell activation and clonal selection are pivotal in orchestrating this immune response. This article elucidates these mechanisms, detailing the roles of cluster of differentiation (CD) markers, major histocompatibility complex (MHC) molecules, costimulatory signals, and the process of clonal selection.
Naive T cells that have not yet encountered an antigen express two primary CD...

You might also read

Related Articles

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

Sort by

Same author

Single-cell TCR mapping reveals spatially coordinated T cell states in head and neck cancer.

Science immunology·2026

Same author

An Interpretable Multi-instance Learner Decodes Cellular Recruitment from Spatially Resolved Transcriptomics.

bioRxiv : the preprint server for biology·2025

Same author

Bypassing cisplatin resistance in Nrf2 hyperactivated head and neck cancer through effective PI3Kinase targeting.

British journal of cancer·2025

Same author

CD7 regulates the persistence of terminally exhausted CD8<sup>+</sup> T cells during chronic infection.

Cell reports·2025

Same author

Nrf2 Hyperactivation as a Driver of Radiotherapy Resistance and Suppressed Antitumor Immunity in Head and Neck Squamous Cell Carcinoma.

Clinical cancer research : an official journal of the American Association for Cancer Research·2025

Same author

Tobacco smoke exposure is a driver of altered oxidative stress response and immunity in head and neck cancer.

Journal of translational medicine·2025

Search research articles

Related Experiment Video

Updated: Sep 8, 2025

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Published on: July 6, 2022

Localization of T cell clonotypes using the Visium spatial transcriptomics platform.

William H Hudson^1,2, Lisa J Sudmeier^3,4

¹Emory Vaccine Center, Atlanta, GA, USA.

|June 16, 2022

Summary

This summary is machine-generated.

We developed a new protocol to map T-cell receptor clones within tissues using spatial transcriptomics. This method precisely locates T-cell clonotypes and gene expression, aiding tumor microenvironment research.

Keywords:

Immunology Molecular Biology Sequence analysis

More Related Videos

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

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

Published on: March 25, 2020

Author Spotlight: Exploring Advanced Therapeutic Targets in Osteosarcoma Through Spatial Transcriptomics

Author Spotlight: Exploring Advanced Therapeutic Targets in Osteosarcoma Through Spatial Transcriptomics

Published on: May 3, 2024

Related Experiment Videos

Last Updated: Sep 8, 2025

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Spatial Profiling of Protein and RNA Expression in Tissue: An Approach to Fine-Tune Virtual Microdissection

Published on: July 6, 2022

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

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

Published on: March 25, 2020

Author Spotlight: Exploring Advanced Therapeutic Targets in Osteosarcoma Through Spatial Transcriptomics

Author Spotlight: Exploring Advanced Therapeutic Targets in Osteosarcoma Through Spatial Transcriptomics

Published on: May 3, 2024

Area of Science:

Immunology
Genomics
Bioinformatics

Background:

Understanding the spatial distribution of immune cells is crucial for disease research.
Current methods often lack the resolution to pinpoint specific T-cell clones within their tissue microenvironment.

Purpose of the Study:

To present a novel protocol for the in situ localization of T-cell receptor (TCR) clones.
To enable simultaneous mapping of gene expression and T-cell clonotypes within tissue sections.

Main Methods:

Utilized the Visium spatial transcriptomics platform.
Integrated T-cell receptor sequencing with spatial gene expression analysis.
Validated TCR sequence recapitulation with single-cell sequencing.

Main Results:

Successfully localized T-cell receptor clones and gene expression simultaneously within tissue sections.
Demonstrated that TCR sequences identified by the protocol are reproducible via single-cell sequencing.
Established a method for detailed spatial analysis of the human T-cell repertoire.

Conclusions:

The developed protocol allows for precise spatial mapping of T-cell clonotypes.
This technique is valuable for studying immune cell infiltration, particularly in the tumor microenvironment.
Facilitates in-depth investigations into the spatial organization of immune responses.