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

Cross-reactivity00:42

Cross-reactivity

32.8K
Overview
32.8K
Diversity of Antigen Receptors01:28

Diversity of Antigen Receptors

1.4K
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...
1.4K
B Cell Activation and Differentiation01:24

B Cell Activation and Differentiation

15.9K
The adaptive immune response, a sophisticated defense mechanism, relies on the activation and differentiation of B lymphocytes, or B cells. These processes enable our bodies to mount a tailored response against specific pathogens such as bacteria, free virus particles, toxins, and parasites.
When naive B cells encounter a specific antigen that can bind to the B cell receptor (BCR) on their surface, they undergo sensitization to respond to the antigen's presence. Sensitization begins with...
15.9K

You might also read

Related Articles

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

Sort by
Same author

Adversity as the key feature: neuroimaging profiles of subtypes from multiple depression risk factors.

Psychological medicine·2026
Same author

Lyophilizable Thermostable Nano-Aluminum Adjuvant and Combinations Induced Robust Antigen-Specific Humoral and Cellular Immunity in Mice.

Advanced healthcare materials·2026
Same author

Tumor cells metabolically resist immune-checkpoint therapy by macrophage efferocytosis-mediated fatty acid recycling.

Cancer cell·2026
Same author

Genomic insights into intra-specific differentiation and potential evolution of antibiotic resistance/virulence factor genes in Klebsiella oxytoca.

Microbial pathogenesis·2026
Same author

Perilipin-2-Anchored Lipid Droplet-Targeting Phototheranostics.

Angewandte Chemie (International ed. in English)·2026
Same author

Risk factors for progression to bronchitis or pneumonia in hospitalized children with human rhinovirus infection: a retrospective cohort study using machine learning.

Frontiers in pediatrics·2026
Same journal

conMItion: an R package adjusting confounding factors for associations in multi-omics.

Bioinformatics (Oxford, England)·2026
Same journal

SpaMFG: a Spatial Multi-omics Integration Method based on Feature Grouping.

Bioinformatics (Oxford, England)·2026
Same journal

CSCN: Inference of Cell-Specific Causal Networks Using Single-Cell RNA-Seq Data.

Bioinformatics (Oxford, England)·2026
Same journal

Sparse CCA-Based Mediation Analysis with High-Dimensional Exposures and Mediators.

Bioinformatics (Oxford, England)·2026
Same journal

Enhancing Cross-Context Generalization in Drug Perturbation Prediction with a Multimodal Conditional Diffusion Framework.

Bioinformatics (Oxford, England)·2026
Same journal

Primer Design through Submodular Function Estimation.

Bioinformatics (Oxford, England)·2026
See all related articles

Related Experiment Video

Updated: Jan 14, 2026

Peptide Scanning-assisted Identification of a Monoclonal Antibody-recognized Linear B-cell Epitope
08:09

Peptide Scanning-assisted Identification of a Monoclonal Antibody-recognized Linear B-cell Epitope

Published on: March 24, 2017

10.0K

RoBep: a region-oriented deep learning model for B-cell epitope prediction.

Yitao Xu1, Guanyun Wei2, Jingying Zhou3

  • 1Department of Statistics and Data Science, The Chinese University of Hong Kong, Shatin, N.T., Hong Kong SAR, China.

Bioinformatics (Oxford, England)
|January 13, 2026
PubMed
Summary
This summary is machine-generated.

RoBep accurately predicts B-cell epitopes by modeling spatial residue clustering, improving antibody design and vaccine development. This region-oriented predictor enhances biological plausibility for immunotherapeutics.

More Related Videos

A High Throughput MHC II Binding Assay for Quantitative Analysis of Peptide Epitopes
07:59

A High Throughput MHC II Binding Assay for Quantitative Analysis of Peptide Epitopes

Published on: March 25, 2014

15.6K
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

13.0K

Related Experiment Videos

Last Updated: Jan 14, 2026

Peptide Scanning-assisted Identification of a Monoclonal Antibody-recognized Linear B-cell Epitope
08:09

Peptide Scanning-assisted Identification of a Monoclonal Antibody-recognized Linear B-cell Epitope

Published on: March 24, 2017

10.0K
A High Throughput MHC II Binding Assay for Quantitative Analysis of Peptide Epitopes
07:59

A High Throughput MHC II Binding Assay for Quantitative Analysis of Peptide Epitopes

Published on: March 25, 2014

15.6K
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

13.0K

Area of Science:

  • Computational biology
  • Immunoinformatics
  • Structural biology

Background:

  • Accurate B-cell epitope prediction is vital for antibody design and vaccine development.
  • Current methods often predict residues individually, neglecting spatial continuity and biological plausibility.
  • B-cell epitopes are known to cluster spatially on antigen surfaces.

Purpose of the Study:

  • To develop a region-oriented B-cell epitope predictor that explicitly models spatial residue clustering.
  • To improve the biological plausibility and practical relevance of in silico epitope predictions.
  • To enhance antibody design and structure-guided vaccine development.

Main Methods:

  • Developed RoBep, a novel region-oriented B-cell epitope predictor.
  • Integrated the protein language model ESM-Cambrian with an equivariant graph neural network.
  • Introduced a region constraint mechanism to ensure spatial compactness of predicted epitope residues.

Main Results:

  • RoBep significantly outperforms existing structure-based methods on benchmark datasets.
  • Achieved substantial improvements in F1 (26%), MCC (45%), AUPR (13%), and AUROC0.1 (43%).
  • RoBep provides both residue-level predictions and antibody-antigen binding regions with enhanced spatial compactness.

Conclusions:

  • RoBep offers a biologically plausible and spatially coherent approach to B-cell epitope prediction.
  • The method enhances the utility of in silico predictions for immunotherapeutic design.
  • RoBep represents a significant advancement in structure-guided antibody and vaccine development.