Epitope mapping by epitope excision, hydrogen/deuterium exchange, and peptide-panning techniques combined with in silico analysis

Nicola Clementi, Nicasio Mancini, Elena Criscuolo, Francesca Cappelletti, Massimo Clementi, Roberto Burioni

Research output: Contribution to journalArticle


The fine characterization of protective B cell epitopes plays a pivotal role in the development of novel vaccines. The development of epitope-based vaccines, in fact, cannot be possible without a clear definition of the antigenic regions involved in the binding between the protective antibody (Ab) and its molecular target. To achieve this result, different epitope-mapping approaches have been widely described (Clementi et al. Drug Discov Today 18(9-10):464-471, 2013). Nowadays, the best way to characterize an Ab bound region is still the resolution of Ab-antigen (Ag) co-crystal structure. Unfortunately, the crystallization approaches are not always feasible. However, different experimental strategies aimed to predict Ab-Ag interaction and followed by in silico analysis of the results may be good surrogate approaches to achieve this result. Here, we review few experimental techniques followed by the use of "basic" informatics tools for the analysis of the results.

Original languageEnglish
Pages (from-to)427-446
Number of pages20
JournalMethods in molecular biology (Clifton, N.J.)
Publication statusPublished - 2014



  • B cell epitope
  • Epitope excision
  • Epitope-based vaccines
  • Hydrogen/deuterium exchange
  • Peptide-panning techniques

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

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