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Related Concept Videos

Diversity of Antigen Receptors01:28

Diversity of Antigen Receptors

550
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...
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T Cell Activation and Clonal Selection01:22

T Cell Activation and Clonal Selection

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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...
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  3. Predicting Antigen-specificities Of Orphan T Cell Receptors From Cancer Patients With Tcrpcdist.
  1. Home
  3. Predicting Antigen-specificities Of Orphan T Cell Receptors From Cancer Patients With Tcrpcdist.

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Predicting Antigen-Specificities of Orphan T Cell Receptors from Cancer Patients with TCRpcDist.

Marta A S Perez1,2, Johanna Chiffelle1,3, Sara Bobisse1,3

  • 1Department of Oncology, Ludwig Institute for Cancer Research, Lausanne Branch, Lausanne University Hospital (CHUV) and University of Lausanne (UNIL), Agora Cancer Research Center, Lausanne, CH-1005, Switzerland.

Advanced Science (Weinheim, Baden-Wurttemberg, Germany)
|August 19, 2024

View abstract on PubMed

Summary
This summary is machine-generated.

TCRpcDist, a novel 3D approach, accurately clusters T-cell receptor repertoires by analyzing physico-chemical properties. This method aids in identifying antigen specificities for personalized cancer immunotherapies.

Keywords:
deorphanizationepitope specificityspecificity predictiont cell receptors (TCRs)tcr clusteringtumor antigens

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Area of Science:

  • Immunology
  • Bioinformatics
  • Computational Biology

Background:

  • T-cell receptor (TCR) repertoire analysis is crucial for diagnosing immune diseases and developing personalized therapies.
  • Current sequence-based and structure-based methods for TCR analysis have limitations, especially with scarce data or for large-scale predictions.

Purpose of the Study:

  • To introduce TCRpcDist, a 3D-based computational approach for analyzing TCR similarities based on physico-chemical properties.
  • To evaluate TCRpcDist's performance against existing methods in clustering TCRs with similar antigen specificities.

Main Methods:

  • TCRpcDist calculates TCR similarities using a metric based on the physico-chemical properties of loop residues predicted to interact with epitopes.
  • The approach was validated using private and public datasets, comparing its performance with competing methods.

Main Results:

  • TCRpcDist accurately identifies groups of TCRs likely to bind the same epitopes.
  • The method was experimentally validated for determining antigen specificities of orphan tumor-infiltrating lymphocytes (TILs) in cancer patients.

Conclusions:

  • TCRpcDist is a promising tool for TCR repertoire analysis and TCR deorphanization.
  • This approach supports the development of individualized treatments, including cancer immunotherapies.