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

Diversity of Antigen Receptors01:28

Diversity of Antigen Receptors

551
Antigen receptors are essential components of the immune system crucial in defending the body against foreign invaders. These receptors are present on the surface of B and T cells, enabling them to recognize antigens and mount an appropriate immune response.
Before encountering any antigen, lymphocytes express these receptors. On B cells, the antigen receptor is a membrane-bound antibody molecule called BCR; on T cells, it is a T cell receptor or TCR. B and T cell receptors are composed of two...
551
T Cell Activation and Clonal Selection01:22

T Cell Activation and Clonal Selection

693
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...
693
Cells of the Adaptive Immune Response01:23

Cells of the Adaptive Immune Response

972
The T and B lymphocytes of the adaptive immune system develop from common lymphoid progenitor cells in the bone marrow. These progenitors give rise to precursors that eventually develop into both T and B lymphocytes. As these precursors mature, they gain the ability to detect and respond to foreign antigens in the body, a process known as immunocompetence. Additionally, these precursors acquire self-tolerance, a process that ensures they do not react to self-antigens. This intricate system...
972
Special Features of Adaptive Immunity01:20

Special Features of Adaptive Immunity

783
The adaptive immune system, a crucial component of the overall immune response, offers a highly specialized defense against pathogens. It involves specific cell types and features, enabling it to combat infections effectively and efficiently.
The primary cell types involved in adaptive immunity are T cells and B cells. Each type has a unique role in defending the body against pathogens. T cells are responsible for cell-mediated immunity. They identify and eliminate infected cells directly,...
783
Antigens Involved in Adaptive Immunity01:26

Antigens Involved in Adaptive Immunity

479
An antigen is any substance the immune system identifies as foreign and potentially harmful to the body, prompting an immune response. Antigens have two functional properties: immunogenicity and reactivity. Immunogenicity is the ability of an antigen to stimulate a specific immune response. At the same time, reactivity describes the antigen's ability to react with the cells and antibodies produced in response to it.
Complete Antigens
Complete antigens possess both immunogenicity and...
479
Cross-reactivity00:42

Cross-reactivity

31.0K
Overview
31.0K

You might also read

Related Articles

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

Sort by
Same author

Dissecting serum polyclonal antibody escape to SARS-CoV-2 variants by deep mutational learning.

Cell reports methods·2026
Same author

Modeling chimeric antigen receptor response at the single-cell level with conditional optimal transport.

Cell systems·2026
Same author

Protein Target Highlights in CASP16: Insights From the Structure Providers.

Proteins·2025
Same author

Delineating inter- and intra-antibody repertoire evolution with AntibodyForests.

Bioinformatics (Oxford, England)·2025
Same author

Synthetic coevolution reveals adaptive mutational trajectories of neutralizing antibodies and SARS-CoV-2.

Cell systems·2025
Same author

Protein language model pseudolikelihoods capture features of in vivo B cell selection and evolution.

Briefings in bioinformatics·2025

Related Experiment Video

Updated: Jun 17, 2025

Generating De Novo Antigen-specific Human T Cell Receptors by Retroviral Transduction of Centric Hemichain
08:48

Generating De Novo Antigen-specific Human T Cell Receptors by Retroviral Transduction of Centric Hemichain

Published on: October 25, 2016

8.5K

TCR clustering by contrastive learning on antigen specificity.

Margarita Pertseva1,2, Oceane Follonier1, Daniele Scarcella1

  • 1Department of Biosystems Science and Engineering, ETH Zurich, Schanzenstrasse 44, 4056 Basel, Switzerland.

Briefings in Bioinformatics
|August 12, 2024
PubMed
Summary

This study introduces TouCAN, a new method for clustering T-cell receptor (TCR) sequences to predict antigen specificity. TouCAN effectively groups dissimilar TCR sequences, advancing antigen-specific T-cell response research.

Keywords:
ESM modelT cell receptorTCR clusteringcontrastive learningdeep learning

More Related Videos

Using X-ray Crystallography, Biophysics, and Functional Assays to Determine the Mechanisms Governing T-cell Receptor Recognition of Cancer Antigens
09:53

Using X-ray Crystallography, Biophysics, and Functional Assays to Determine the Mechanisms Governing T-cell Receptor Recognition of Cancer Antigens

Published on: February 6, 2017

11.4K
Measuring TCR-pMHC Binding In Situ using a FRET-based Microscopy Assay
19:05

Measuring TCR-pMHC Binding In Situ using a FRET-based Microscopy Assay

Published on: October 30, 2015

12.3K

Related Experiment Videos

Last Updated: Jun 17, 2025

Generating De Novo Antigen-specific Human T Cell Receptors by Retroviral Transduction of Centric Hemichain
08:48

Generating De Novo Antigen-specific Human T Cell Receptors by Retroviral Transduction of Centric Hemichain

Published on: October 25, 2016

8.5K
Using X-ray Crystallography, Biophysics, and Functional Assays to Determine the Mechanisms Governing T-cell Receptor Recognition of Cancer Antigens
09:53

Using X-ray Crystallography, Biophysics, and Functional Assays to Determine the Mechanisms Governing T-cell Receptor Recognition of Cancer Antigens

Published on: February 6, 2017

11.4K
Measuring TCR-pMHC Binding In Situ using a FRET-based Microscopy Assay
19:05

Measuring TCR-pMHC Binding In Situ using a FRET-based Microscopy Assay

Published on: October 30, 2015

12.3K

Area of Science:

  • Immunology
  • Bioinformatics
  • Computational Biology

Background:

  • T-cell receptor (TCR) sequences are crucial for adaptive immunity.
  • Clustering TCR sequences aids in predicting antigen specificity.
  • Grouping highly dissimilar TCR sequences that recognize the same antigen presents a significant challenge.

Purpose of the Study:

  • To develop a novel computational method for clustering TCR sequences.
  • To predict antigen specificity using TCR sequence data.
  • To address the challenge of clustering dissimilar TCR sequences that share antigen specificity.

Main Methods:

  • Utilized contrastive learning techniques.
  • Employed pretrained protein language models.
  • Developed a method named TouCAN for TCR sequence clustering and antigen-specificity prediction.

Main Results:

  • TouCAN successfully clusters highly dissimilar TCR sequences into common antigen groups.
  • The method demonstrates robust TCR clustering performance.
  • Antigen-specificity predictions by TouCAN are comparable to existing leading methods.

Conclusions:

  • TouCAN offers an effective approach for TCR sequence clustering and antigen-specificity prediction.
  • The method shows promise in advancing the understanding of T-cell responses.
  • TouCAN provides a valuable tool for immunological research and diagnostics.