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Nucleic Acids Research 2005 33(Web Server Issue):W180-W183; doi:10.1093/nar/gki479
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© The Author 2005. Published by Oxford University Press. All rights reserved
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions{at}oupjournals.org

Article

PREDBALB/c: a system for the prediction of peptide binding to H2d molecules, a haplotype of the BALB/c mouse

Guang Lan Zhang1,2, Kellathur N. Srinivasan3,4, Anitha Veeramani1, J. Thomas August3 and Vladimir Brusic1,5,*

1Institute for Infocomm Research 21 Heng Mui Keng Terrace, Singapore 119613 2School of Computer Engineering, Nanyang Technological University Singapore 6397984 3Department of Pharmacology and Molecular Sciences, Johns Hopkins University School of Medicine Baltimore, MD 21205, USA 4Division of Biomedical Sciences, Johns Hopkins in Singapore #02–01 The Nanos, 31 Biopolis Way, Singapore 138669 5School of Land and Food Sciences and the Institute for Molecular Bioscience, University of Queensland Brisbane QLD 4072, Australia

*To whom correspondence should be addressed: Tel: +65 96 212 415; Fax: +65 6774 8056; Email: vladimir{at}i2r.a-star.edu.sg

Received February 14, 2005. Revised February 15, 2005. Accepted April 15, 2005.

PREDBALB/c is a computational system that predicts peptides binding to the major histocompatibility complex-2 (H2d) of the BALB/c mouse, an important laboratory model organism. The predictions include the complete set of H2d class I (H2-Kd, H2-Ld and H2-Dd) and class II (I-Ed and I-Ad) molecules. The prediction system utilizes quantitative matrices, which were rigorously validated using experimentally determined binders and non-binders and also by in vivo studies using viral proteins. The prediction performance of PREDBALB/c is of very high accuracy. To our knowledge, this is the first online server for the prediction of peptides binding to a complete set of major histocompatibility complex molecules in a model organism (H2d haplotype). PREDBALB/c is available at http://antigen.i2r.a-star.edu.sg/predBalbc/.


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