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Version history


Please click on the version number to activate the corresponding server.

1.2 The current server (online since 18 Dec 2010). New in this version:
  • Updated to to use the NetMHCpan-2.4 method for peptide MHC binding predictions.
1.1 The current server (online since 07 Oct 2010). New in this version:
  • The method has been updated to include the newest MHC allele releases from the IMGT/HLA and IPD-MHC databases (for non-human primates and pig). These updates include incoportation of the new nomemclature for HLA and Rhesus macaque (Mamu). The update also includes a shift from NetMHCpan-2.2 to the more recent NetMHCpan-2.3 method for peptide MHC binding predictions.
1.0 The original server (online since 01 August 2010):
  • HLArestrictor is a tool for patient-specific predictions of HLA restriction elements and optimal epitopes within peptides or proteins. Given the high-resolution (i.e. 4-digit) HLA typing of the individual, HLArestrictor predicts all 8-11mer peptide-binders within one or more larger peptides and provides an overview of the predicted HLA restrictions and minimal epitopes.

Main publication:

HLArestrictor - a tool for patient-specific predictions of HLA restriction elements and optimal epitopes within peptides or proteins
Malene Erup Larsen1, Henrik Kloverpris2, Annette Stryhn3, Catherine K. Koofhethile2, Stuart Sims2,
Thumbi Ndung'u4,5, Philip Goulder2, Soren Buus, and Morten Nielsen1 Submitted 2010.

1Center for Biological Sequence Analysis, Technical University of Denmark, DK-2800 Lyngby, Denmark
2University of Oxford, Peter Medawar Building for Pathogen Research, South Parks Road, OX1 3SY, Oxford, England
3Laboratory of Experimental Immunology, Faculty of Health Sciences, University of Copenhagen, Denmark
4HIV Pathogenesis Programme, Doris Duke Medical Research Institute, University of KwaZulu-Natal, Durban, South Africa
5Ragon Institute of Massachusetts General Hospital, Massachusetts Institute of Technology and Harvard University, Charlestown, MA, 02129, USA

Traditionally, T cell epitope discovery requires considerable amounts of tedious, slow and costly experimental work. During the last decade, prediction tools have emerged as essential tools allowing researchers to select a manageable list of epitope candidates to test from a larger peptide, protein or even proteome. However, no current tools addresses the complexity caused by the highly polymorphic nature of the restricting HLA molecules, which effectively individualizes T cell responses. To fill this gap, we here present an easy-to-use prediction tool named HLArestrictor (http://www.cbs.dtu.dk/services/HLArestrictor), which is based on the highly versatile and accurate NetMHCpan predictor, which here has been optimized for the identification of both the MHC restriction element and the corresponding minimal epitope of a T cell response in a given individual. As input, it requires high-resolution (i.e. 4-digit) HLA typing of the individual. HLArestrictor then predicts all 8-11mer peptide-binders within one or more larger peptides and provides an overview of the predicted HLA restrictions and minimal epitopes. The method was tested on a large dataset of HIV IFN ELIspot peptide responses, and was shown to identify HLA-restrictions and minimal epitopes for about 90% of the positive peptide/patient pairs, while rejecting more than 95% of the negative pairs. Furthermore, for 18 peptide/HLA tetramer validated responses, HLArestrictor in all cases predicted both the HLA restriction element and minimal epitope. Thus, HLArestrictor should be a valuable tool in any T cell epitope discovery process aimed at identifying new epitopes from infectious diseases and other disease models.




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