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

1.3K
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...
1.3K
Cells of the Adaptive Immune Response01:23

Cells of the Adaptive Immune Response

8.2K
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...
8.2K
Cell-mediated Immune Responses01:40

Cell-mediated Immune Responses

83.1K
Overview
83.1K
Special Features of Adaptive Immunity01:20

Special Features of Adaptive Immunity

2.8K
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,...
2.8K
Exon Recombination02:32

Exon Recombination

4.0K
The evolution of new genes is critical for speciation. Exon recombination, also known as exon shuffling or domain shuffling, is an important means of new gene formation. It is observed across vertebrates, invertebrates, and in some plants such as potatoes and sunflowers. During exon recombination, exons from the same or different genes recombine and produce new exon-intron combinations, which might evolve into new genes. 
Exon shuffling follows “splice frame rules.” Each exon...
4.0K
Antigens Involved in Adaptive Immunity01:26

Antigens Involved in Adaptive Immunity

1.2K
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...
1.2K

You might also read

Related Articles

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

Sort by
Same author

Uncertainty-aware quantitative analysis of high-throughput live cell migration data.

PLoS computational biology·2026
Same author

Patient-derived glioblastoma cultures preserve respiration phenotypes during ex vivo maintenance and show sex-associated differences in migration.

Acta neuropathologica communications·2026
Same author

Multiplets in scRNA-seq data: Extent of the problem and efficacy of methods for removal.

PloS one·2025
Same author

High-resolution spatial transcriptomics uncover epidermal-dermal divergences in Merkel cell carcinoma: spatial context reshapes the gene expression landscape.

Oncogene·2025
Same author

Tertiary lymphoid structures in Merkel cell carcinoma facilitate naïve and central memory T-cell infiltration linked to immunotherapy response.

Journal for immunotherapy of cancer·2025
Same author

Bath: a Bayesian approach to analyze epigenetic transitions reveals a dual role of H3K27me3 in chondrogenesis.

Epigenetics & chromatin·2025

Related Experiment Video

Updated: Dec 26, 2025

T and B Cell Receptor Immune Repertoire Analysis using Next-generation Sequencing
08:59

T and B Cell Receptor Immune Repertoire Analysis using Next-generation Sequencing

Published on: January 12, 2021

8.6K

IgGeneUsage: differential gene usage in immune repertoires.

Simo Kitanovski1, Daniel Hoffmann1

  • 1Bioinformatics and Computational Biophysics, Faculty of Biology and Centre for Medical Biotechnology (ZMB), University of Duisburg-Essen, Essen 45141, Germany.

Bioinformatics (Oxford, England)
|March 13, 2020
PubMed
Summary

This study introduces IgGeneUsage, a new computational tool for analyzing immune repertoire gene usage. It uses Bayesian inference to accurately quantify differential immunoglobulin gene usage, improving upon existing statistical methods.

More Related Videos

Identification of Mouse and Human Antibody Repertoires by Next-Generation Sequencing
08:51

Identification of Mouse and Human Antibody Repertoires by Next-Generation Sequencing

Published on: March 15, 2019

12.9K
Differentiating Functional Roles of Gene Expression from Immune and Non-immune Cells in Mouse Colitis by Bone Marrow Transplantation
14:43

Differentiating Functional Roles of Gene Expression from Immune and Non-immune Cells in Mouse Colitis by Bone Marrow Transplantation

Published on: October 1, 2012

18.7K

Related Experiment Videos

Last Updated: Dec 26, 2025

T and B Cell Receptor Immune Repertoire Analysis using Next-generation Sequencing
08:59

T and B Cell Receptor Immune Repertoire Analysis using Next-generation Sequencing

Published on: January 12, 2021

8.6K
Identification of Mouse and Human Antibody Repertoires by Next-Generation Sequencing
08:51

Identification of Mouse and Human Antibody Repertoires by Next-Generation Sequencing

Published on: March 15, 2019

12.9K
Differentiating Functional Roles of Gene Expression from Immune and Non-immune Cells in Mouse Colitis by Bone Marrow Transplantation
14:43

Differentiating Functional Roles of Gene Expression from Immune and Non-immune Cells in Mouse Colitis by Bone Marrow Transplantation

Published on: October 1, 2012

18.7K

Area of Science:

  • Immunology
  • Bioinformatics
  • Computational Biology

Background:

  • Understanding adaptive immune responses requires decoding immune repertoire properties.
  • Differential usage of immunoglobulin (Ig) genes is a key quantitative property.
  • Current methods for analyzing differential Ig gene usage often lack statistical rigor.

Purpose of the Study:

  • To introduce IgGeneUsage, a novel computational tool for the analysis of differential Ig gene usage.
  • To provide a robust statistical framework for analyzing high-throughput immune repertoire sequencing data.
  • To address limitations in current qualitative or statistically inadequate methods for Ig gene usage analysis.

Main Methods:

  • Development of IgGeneUsage, an R-package available via Bioconductor.
  • Application of Bayesian inference with hierarchical models.
  • Probabilistic quantification of differential Ig gene usage.

Main Results:

  • IgGeneUsage enables accurate analysis of complex gene usage data from immune repertoires.
  • The tool provides probabilistic quantification of differential Ig gene usage.
  • It overcomes common issues associated with null-hypothesis significance testing in this field.

Conclusions:

  • IgGeneUsage offers a statistically sound approach for analyzing differential Ig gene usage.
  • This tool enhances the understanding of adaptive immunity through improved repertoire analysis.
  • The R-package provides a freely accessible resource for researchers.