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Review
. 2010;2010:910524.
doi: 10.1155/2010/910524. Epub 2010 Mar 30.

Benchmarking B-cell Epitope Prediction for the Design of Peptide-Based Vaccines: Problems and Prospects

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Free PMC article
Review

Benchmarking B-cell Epitope Prediction for the Design of Peptide-Based Vaccines: Problems and Prospects

Salvador Eugenio C Caoili. J Biomed Biotechnol. .
Free PMC article

Abstract

To better support the design of peptide-based vaccines, refinement of methods to predict B-cell epitopes necessitates meaningful benchmarking against empirical data on the cross-reactivity of polyclonal antipeptide antibodies with proteins, such that the positive data reflect functionally relevant cross-reactivity (which is consistent with antibody-mediated change in protein function) and the negative data reflect genuine absence of cross-reactivity (rather than apparent absence of cross-reactivity due to artifactual masking of B-cell epitopes in immunoassays). These data are heterogeneous in view of multiple factors that complicate B-cell epitope prediction, notably physicochemical factors that define key structural differences between immunizing peptides and their cognate proteins (e.g., unmatched electrical charges along the peptide-protein sequence alignments). If the data are partitioned with respect to these factors, iterative parallel benchmarking against the resulting subsets of data provides a basis for systematically identifying and addressing the limitations of methods for B-cell epitope prediction as applied to vaccine design.

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References

    1. Marshall SJ. Developing countries face double burden of disease. Bulletin of the World Health Organization. 2004;82(7):p. 556. - PMC - PubMed
    1. De Groot AS, Rappuoli R. Genome-derived vaccines. Expert Review of Vaccines. 2004;3(1):59–76. - PubMed
    1. Korber B, LaBute M, Yusim K. Immunoinformatics comes of age. PLoS Computational Biology. 2006;2(6, article e71) - PMC - PubMed
    1. Fauci AS. Emerging and re-emerging infectious diseases: influenza as a prototype of the host-pathogen balancing act. Cell. 2006;124(4):665–670. - PMC - PubMed
    1. Belpomme D, Irigaray P, Sasco AJ, et al. The growing incidence of cancer: role of lifestyle and screening detection (Review) International Journal of Oncology. 2007;30(5):1037–1049. - PubMed

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