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Bioinformatics Advance Access published online on January 24, 2006
Bioinformatics, doi:10.1093/bioinformatics/btl012
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© The Author (2006). Published by Oxford University Press. All rights reserved. For Permissions, please email: journals.permissions@oxfordjournals.org
Received October 21, 2005
Revised January 10, 2006
Accepted January 19, 2006

Article

Discontinuous epitope prediction based on mimotope analysis

Violaine Moreau 1, Claude Granier 1, Sylvie Villard 1, Daniel Laune 1, and Franck Molina 1 *

1 CNRS UMR 5160, Centre de Pharmacologie et Biotechnologie pour la Santé, Faculté de Pharmacie, 15 Avenue Charles Flahault, BP 14491, 34093 Montpellier Cedex 5, France

* To whom correspondence should be addressed.
Franck Molina, E-mail: franck.molina{at}cpbs.univ-montp1.fr


  Abstract

Motivation: Phage display is a widespread technique used to obtain peptide mimotopes selected by binding to a given monoclonal antibody in a similar way as the native epitope. However, the localization of the interaction site mimicked by the mimotopes on the surface of the antigen is not always a straightforward task. MIMOP is a computational tool developed with the aim of helping experimentalists to analyze a set of mimotope sequences and guide them in the identification of the mimicked region.

Results: To predict potential epitopic regions, MIMOP integrates two different approaches combining 2D and 3D analyses: MimAlign starts from degenerated alignment analyses, and MimCons is based on consensus identification. The relevance and usefulness of the tool are illustrated by four use cases corresponding to real-life situations.

Availability: upon request.

Associate Editor: Anna Tramontano
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