title: Vaxign: the first web-based vaccine design program for reverse vaccinology and applications for vaccine development.
abstract: Vaxign is the first web-based vaccine design system that predicts vaccine targets based on genome sequences using the strategy of reverse vaccinology. Predicted features in the Vaxign pipeline include protein subcellular location, transmembrane helices, adhesin probability, conservation to human and/or mouse proteins, sequence exclusion from genome(s) of nonpathogenic strain(s), and epitope binding to MHC class I and class II. The precomputed Vaxign database contains prediction of vaccine targets for >70 genomes. Vaxign also performs dynamic vaccine target prediction based on input sequences. To demonstrate the utility of this program, the vaccine candidates against uropathogenic Escherichia coli (UPEC) were predicted using Vaxign and compared with various experimental studies. Our results indicate that Vaxign is an accurate and efficient vaccine design program.
authors.affiliation: Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA. yongqunh@med.umich.edu
authors.forename: Yongqun
authors.initials: Y
authors.lastname: He
authors.forename: Zuoshuang
authors.initials: Z
authors.lastname: Xiang
authors.forename: Harry L T
authors.initials: HL
authors.lastname: Mobley
mesh_terms: D000465:Algorithms; D001425:Bacterial Outer Membrane Proteins / Q000276:immunology; D001709:Biotechnology / Q000379:methods*; D000939:Epitopes / Q000276:immunology; D016680:Genome, Bacterial / Q000235:genetics; D015395:Histocompatibility Antigens Class I / Q000276:immunology; D020407:Internet; D012372:ROC Curve; D015203:Reproducibility of Results; D017422:Sequence Analysis, DNA; D012984:Software; D056689:Uropathogenic Escherichia coli / Q000235:genetics / Q000276:immunology; D014584:User-Computer Interface; D014612:Vaccines / Q000138:chemical synthesis* / Q000276:immunology
chemical_list: D001425:Bacterial Outer Membrane Proteins; D000939:Epitopes; D015395:Histocompatibility Antigens Class I; D014612:Vaccines