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

T Cell Activation and Clonal Selection01:22

T Cell Activation and Clonal Selection

13.6K
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...
13.6K
Diversity of Antigen Receptors01:28

Diversity of Antigen Receptors

2.1K
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...
2.1K

You might also read

Related Articles

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

Sort by
Same author

Spatial transcriptomics identifies a suppressive, T-cell excluded tumor microenvironment in extramedullary myeloma.

Blood advances·2026
Same author

Heart Rate Monitors for the Estimation of Physical Activity in Patients With Cardiovascular Disease: Systematic Review.

JMIR mHealth and uHealth·2026
Same author

Plant-based whole-food diets are feasible during auto-HCT and are associated with dose-dependent microbiome modulation.

Blood advances·2026
Same author

Clonal overlap and convergent clustering of T cell receptor signatures in Crohn's disease in monozygotic twins.

Inflammatory bowel diseases·2026
Same author

Cohesive modules of engraftment in fecal microbiota transplantation.

iScience·2026
Same author

Challenges and future directions of AIRR-seq-based diagnostics.

Immunoinformatics (Amsterdam, Netherlands)·2026

Related Experiment Video

Updated: Apr 28, 2026

Streamlined Single Cell TCR Isolation and Generation of Retroviral Vectors for In Vitro and In Vivo Expression of Human TCRs
11:21

Streamlined Single Cell TCR Isolation and Generation of Retroviral Vectors for In Vitro and In Vivo Expression of Human TCRs

Published on: September 10, 2017

9.1K

Deciphering antigen-driven T cell responses through vectorized TCRdist sequence neighborhood quantification.

Sebastiaan Valkiers1,2, Koshlan Mayer-Blackwell3, Albert C Yeh4,5

  • 1Department of Computer Science, University of Antwerp, Antwerp, Belgium.

Biorxiv : the Preprint Server for Biology
|April 27, 2026
PubMed
Summary
This summary is machine-generated.

We developed a fast computational framework to analyze T cell receptor (TCR) similarity, distinguishing antigen-driven responses from random patterns. This method efficiently identifies enriched TCR sequences for understanding immune responses.

More Related Videos

Simultaneous Quantification of Anti-vector and Anti-transgene-Specific CD8+ T Cells Via MHC I Tetramer Staining After Vaccination with a Viral Vector
08:10

Simultaneous Quantification of Anti-vector and Anti-transgene-Specific CD8+ T Cells Via MHC I Tetramer Staining After Vaccination with a Viral Vector

Published on: November 28, 2018

11.1K
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

7.8K

Related Experiment Videos

Last Updated: Apr 28, 2026

Streamlined Single Cell TCR Isolation and Generation of Retroviral Vectors for In Vitro and In Vivo Expression of Human TCRs
11:21

Streamlined Single Cell TCR Isolation and Generation of Retroviral Vectors for In Vitro and In Vivo Expression of Human TCRs

Published on: September 10, 2017

9.1K
Simultaneous Quantification of Anti-vector and Anti-transgene-Specific CD8+ T Cells Via MHC I Tetramer Staining After Vaccination with a Viral Vector
08:10

Simultaneous Quantification of Anti-vector and Anti-transgene-Specific CD8+ T Cells Via MHC I Tetramer Staining After Vaccination with a Viral Vector

Published on: November 28, 2018

11.1K
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

7.8K

Area of Science:

  • Immunology
  • Computational Biology
  • Bioinformatics

Background:

  • T cells are crucial for adaptive immunity, utilizing T cell receptors (TCRs) for antigen recognition.
  • Interpreting TCR sequence similarity is challenging, as existing methods struggle to differentiate convergent selection from stochastic V(D)J recombination biases.
  • Analyzing large T cell repertoires for sequence similarity enrichment is computationally intensive.

Purpose of the Study:

  • To present an efficient computational framework for approximating TCRdist distances.
  • To enable rapid, large-scale T cell sequence similarity enrichment testing.
  • To accurately identify significantly neighbor enriched (SNE) TCR sequences.

Main Methods:

  • Utilized fixed-length vector embeddings and optimized nearest neighbor search for rapid distance approximation.
  • Developed a novel shuffling-based background model preserving key repertoire characteristics (V gene frequency, CDR3 length, generation probability).
  • Applied the framework for multi-repertoire-wide sequence similarity enrichment testing.

Main Results:

  • The framework efficiently approximates TCRdist distances and identifies SNE TCR sequences at scale.
  • The shuffling-based background model demonstrated superior accuracy compared to synthetic models.
  • Validated the approach by showing significant enrichment of SNE clones in memory T cell fractions.
  • Demonstrated utility in identifying convergent T cell signatures in response to vaccination and viral infections.

Conclusions:

  • The developed computational framework provides an efficient and robust method for identifying SNE TCR sequences.
  • This approach enables scalable, antigen-agnostic T cell response profiling.
  • The tools facilitate a deeper understanding of immune responses by distinguishing biological signals from stochastic noise.