title: A computational resource for the prediction of peptide binding to Indian rhesus macaque MHC class I molecules.
abstract: Non-human primates, in general, and Indian rhesus macaques, specifically, play an important role in the development and testing of vaccines and diagnostics destined for human use. To date, several frequently expressed macaque MHC molecules have been identified and their binding specificities characterized in detail. Here, we report the development of computational algorithms to predict peptide binding and potential T cell epitopes for the common MHC class I alleles Mamu-A*01, -A*02, -A*11, -B*01 and -B*17, which cover approximately two thirds of the captive Indian rhesus macaque populations. We validated this method utilizing an SIV derived data set encompassing 59 antigenic peptides. Of all peptides contained in the SIV proteome, the 2.4% scoring highest in the prediction contained 80% of the antigenic peptides. The method was implemented in a freely accessible and user friendly website at . Thus, we anticipate that our approach can be utilized to rapidly and efficiently identify CD8+ T cell epitopes recognized by rhesus macaques and derived from any pathogen of interest.
authors.affiliation: La Jolla Institute for Allergy and Immunology, Vaccine Discovery - I, Suite 326, San Diego, CA 92109, USA. bjoern_peters@gmx.net
authors.forename: B
authors.initials: B
authors.lastname: Peters
authors.forename: H-H
authors.initials: HH
authors.lastname: Bui
authors.forename: J
authors.initials: J
authors.lastname: Sidney
authors.forename: Z
authors.initials: Z
authors.lastname: Weng
authors.forename: J T
authors.initials: JT
authors.lastname: Loffredo
authors.forename: D I
authors.initials: DI
authors.lastname: Watkins
authors.forename: B R
authors.initials: BR
authors.lastname: Mothé
authors.forename: A
authors.initials: A
authors.lastname: Sette
mesh_terms: D000465:Algorithms; D000483:Alleles; D000818:Animals; D019295:Computational Biology; D030541:Databases, Genetic; D004797:Enzyme-Linked Immunosorbent Assay; D000939:Epitopes / Q000235:genetics; D005787:Gene Frequency; D005805:Genes, MHC Class I / Q000276:immunology*; D007371:Interferon-gamma / Q000737:chemistry; D020407:Internet; D008253:Macaca mulatta / Q000276:immunology*; D010455:Peptides / Q000138:chemical synthesis / Q000235:genetics / Q000276:immunology*; D011153:Population; D011237:Predictive Value of Tests; D011485:Protein Binding; D012372:ROC Curve; D018449:SAIDS Vaccines / Q000737:chemistry
chemical_list: D000939:Epitopes; D010455:Peptides; D018449:SAIDS Vaccines; D007371:Interferon-gamma