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B cell Epitope Prediction
Advanced conformational B cell epitope prediction and antigen-antibody interaction modelling for therapeutic antibody development and vaccine design.
B cell Epitope Identification & Structural Immunogen Design
AI-driven conformational B cell epitope prediction and structure-guided immunogen engineering - from primary protein sequence to vaccine and therapeutic constructs.
Why B cell Epitope Prediction Remains Challenging
- Most clinically relevant B cell epitopes are conformational rather than linear, making them difficult to identify using conventional sequence-based prediction tools.
- Existing prediction platforms often rely on residue-level scoring approaches that fail to capture complete epitope architecture and frequently show limited cross-pathogen generalizability.
- Moreover, accurate epitope prediction alone is insufficient for therapeutic development. Effective immunogen design also requires optimization for structural stability, solubility, manufacturability, and expression efficiency.
Our Technology
NEC Bio has developed a proprietary computational platform capable of identifying conformational B cell epitopes directly from primary protein sequence data using our molecular permutation vector framework.
Unlike conventional residue-scoring methods, our platform predicts structurally coherent epitope regions, enabling downstream therapeutic and vaccine design with significantly improved biological relevance.
This technology establishes a scalable foundation for integrating computational epitope discovery into modern vaccine development, antibody engineering, and immunotherapeutic research.
- Pathogen proteomes
- Known regions of interest(RoI)
①Data Mining
- Secondary structure information
- Relevant solvent accessibility
②3D Information Prediction
- Data curation
- RoI mapping
③Candidate Region Identification
- Contact point permutations
- Conformational epitope prediction
④Epitope Identification
- Conservation analysis
- Structural stability analysis
- Epitope exposure
⑤Epitope Refinement
From Epitope Prediction to Immunogen Engineering
NEC Bio offers a next-generation platform for the reliable prediction of conformational B cell epitopes using only primary protein sequence information combined with our molecular permutation vector methodology.
Different from the conventional linear and residue-based prediction strategies, our technology identifies complete epitope architectures and resolves their structural and functional detail. This expands the applicability of computational epitope prediction across infectious disease research, vaccine development, antibody discovery, and immunotherapy engineering.
Our pipeline extends beyond epitope identification into full structure-guided construct development.
Key components include:
- AI-based conformational B cell epitope prediction
- Molecular dynamics simulations of candidate epitope regions
- Structural modeling and refinement
- Stability, solubility, and expression optimization
- Rational immunogen and construct design
- Vaccine and therapeutic delivery architecture development
The result is an integrated workflow that transforms predicted epitopes into structurally validated and experimentally actionable constructs.
See the B cell technology applied
Explore how our B cell epitope platform is being applied in infectious disease and immunotherapy development.