ArticleNucleic acids research2014
SEPPA 2.0--more refined server to predict spatial epitope considering species of immune host and subcellular localization of protein antigen.
Article in Nucleic acids research, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 27 papers.
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Who cites it
27 citing papers in PubMed.
- The critical role of artificial intelligence and bioinformatics in accelerating peptide-based vaccine discovery for tackling global infectious diseases.Briefings in bioinformatics · 2026Review
- B-cell epitope prediction in the age of machine learning: advancements and challenges.Journal of translational medicine · 2026Review
- Improving B-cell epitope prediction.Drug discovery today · 2025Review
- A comprehensive antigen-antibody complex database unlocking insights into interaction interface.eLife · 2025Article
- Protective Antimicrobial Effect of the Potential Vaccine Created on the Basis of the Structure of the IgA1 Protease fromVaccines · 2024Article
- Computational Methods to Predict Conformational B-Cell Epitopes.Biomolecules · 2024Review
- Integrating machine learning to advance epitope mapping.Frontiers in immunology · 2024Review
- Multi-perspectives and challenges in identifying B-cell epitopes.Protein science : a publication of the Protein Society · 2023Review
- DL-TCNN: Deep Learning-based Temporal Convolutional Neural Network for prediction of conformational B-cell epitopes.3 Biotech · 2023Article
- The ClusPro AbEMap web server for the prediction of antibody epitopes.Nature protocols · 2023Review
- Article
- Information-Driven Antibody-Antigen Modelling with HADDOCK.Methods in molecular biology (Clifton, N.J.) · 2023Article
- Functional antibody characterization via direct structural analysis and information-driven protein-protein docking.Proteins · 2022Article
- Conformational epitope matching and prediction based on protein surface spiral features.BMC genomics · 2021Article
- Construction of a Lectin-Glycan Interaction Network from EnterohemorrhagicInternational journal of molecular sciences · 2020Article
- Enhancement of conformational B-cell epitope prediction using CluSMOTE.PeerJ. Computer science · 2020Article
- SEPPA 3.0-enhanced spatial epitope prediction enabling glycoprotein antigens.Nucleic acids research · 2019Article
- A multi-method and structure-based in silico vaccine designing againstBioImpacts : BI · 2019Article
- A novel B- and helper T-cell epitopes-based prophylactic vaccine againstBioImpacts : BI · 2018Article
- iBCE-EL: A New Ensemble Learning Framework for Improved Linear B-Cell Epitope Prediction.Frontiers in immunology · 2018Article
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Authors and funding
12 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Spatial Epitope Prediction server for Protein Antigens (SEPPA) has received lots of feedback since being published in 2009. In this improved version, relative ASA preference of unit patch and consolidated amino acid index were added as further classification parameters in addition to unit-triangle propensity and clustering coefficient which were previously reported. Then logistic regression model was adopted instead of the previous simple additive one. Most importantly, subcellular localization of protein antigen and species of immune host were fully taken account to improve prediction. The result shows that AUC of 0.745 (5-fold cross-validation) is almost the baseline performance with no differentiation like all the other tools. Specifying subcellular localization of protein antigen and species of immune host will generally push the AUC up. Secretory protein immunized to mouse can push AUC to 0.823. In this version, the false positive rate has been largely decreased as well. As the first method which has considered the subcellular localization of protein antigen and species of immune host, SEPPA 2.0 shows obvious advantages over the other popular servers like SEPPA, PEPITO, DiscoTope-2, B-pred, Bpredictor and Epitopia in supporting more specific biological needs. SEPPA 2.0 can be accessed at http://badd.tongji.edu.cn/seppa/. Batch query is also supported.
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