EpiTOP—a proteochemometric tool for MHC class II binding prediction


Motivation: T-cell epitope identification is a critical immunoinformatic problem within vaccine design. To be an epitope, a peptide must bind an MHC protein. Results: Here, we present EpiTOP, the first server predicting MHC class II binding based on proteochemometrics, a QSAR approach for ligands binding to several related proteins. EpiTOP uses a quantitative matrix to predict binding to 12 HLA-DRB1 alleles. It identifies 89% of known epitopes within the top 20% of predicted binders, reducing laboratory labour, materials and time by 80%. EpiTOP is easy to use, gives comprehensive quantitative predictions and will be expanded and updated with new quantitative matrices over time.

Publication DOI: https://doi.org/10.1093/bioinformatics/btq324
Divisions: College of Health & Life Sciences > Aston Pharmacy School
College of Health & Life Sciences
College of Health & Life Sciences > Chronic and Communicable Conditions
Additional Information: This is a pre-copy-editing, author-produced PDF of an article accepted for publication in Bioinformatics following peer review. The definitive publisher-authenticated version Dimitrov, I, Garnev, P, Flower, DR & Doytchinova, I 2010, 'EpiTOP—a proteochemometric tool for MHC class II binding prediction', Bioinformatics (Oxford, England), vol 26, no. 16, pp. 2066-8. is available online at:http://bioinformatics.oxfordjournals.org/content/26/16/2066.
Uncontrolled Keywords: alleles,T-lymphocyte epitopes,HLA-DR antigens,HLA-DRB1 chains,histocompatibility antigens class II,ligands,peptides,software,Biochemistry,Molecular Biology,Computational Theory and Mathematics,Computer Science Applications,Computational Mathematics,Statistics and Probability,Medicine(all)
Publication ISSN: 1367-4803
Full Text Link: http://bioinfor ... tent/26/16/2066
Related URLs: http://www.scop ... tnerID=8YFLogxK (Scopus URL)
PURE Output Type: Article
Published Date: 2010-08-15
Published Online Date: 2010-06-23
Authors: Dimitrov, Ivan
Garnev, Panayot
Flower, Darren R (ORCID Profile 0000-0002-8542-7067)
Doytchinova, Irini



Version: Accepted Version

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