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          Institute: MPI für Entwicklungsbiologie     Collection: Abteilung 1 - Protein Evolution (A. Lupas)     Display Documents



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ID: 733218.0, MPI für Entwicklungsbiologie / Abteilung 1 - Protein Evolution (A. Lupas)
Designing string-of-beads vaccines with optimal spacers
Authors:Schubert, B.; Kohlbacher, O.
Date of Publication (YYYY-MM-DD):2016-01-26
Title of Journal:Genome Med
Volume:8
Issue / Number:1
Sequence Number of Article:9
Review Status:Internal review
Audience:Not Specified
Abstract / Description:String-of-beads polypeptides allow convenient delivery of epitope-based vaccines. The success of a polypeptide relies on efficient processing: constituent epitopes need to be recovered while avoiding neo-epitopes from epitope junctions. Spacers between epitopes are employed to ensure this, but spacer selection is non-trivial.We present a framework to determine optimally the length and sequence of a spacer through multi-objective optimization for human leukocyte antigen class I restricted polypeptides. The method yields string-of-bead vaccines with flexible spacer lengths that increase the predicted epitope recovery rate fivefold while reducing the immunogenicity from neo-epitopes by 44% compared to designs without spacers.
Free Keywords:Algorithms; DNA, Intergenic; Epitopes/genetics/*immunology; Genes, MHC Class I; Humans; Models, Genetic; Models, Immunological; Vaccines, DNA/*genetics/immunology
External Publication Status:published
Document Type:Article
Affiliations:MPI für Entwicklungsbiologie/Abteilung 1 - Proteinevolution (Andrei Lupas)
External Affiliations:Department of Computer Science, Applied Bioinformatics, 72076, Tubingen, Germany. schubert@informatik.uni-tuebingen.de. Center for Bioinformatics, University of Tubingen, 72076, Tubingen, Germany. oliver.kohlbacher@uni-tuebingen.de. Department of Computer Science, Applied Bioinformatics, 72076, Tubingen, Germany. oliver.kohlbacher@uni-tuebingen.de. Quantitative Biology Center, 72076, Tubingen, Germany. oliver.kohlbacher@uni-tuebingen.de. Faculty of Medicine, University of Tubingen, 72076, Tubingen, Germany. oliver.kohlbacher@uni-tuebingen.de.
Identifiers:ISSN:1756-994X (Electronic) 1756-994X (Linking) %R 10.1... [ID No:1]
URL:https://www.ncbi.nlm.nih.gov/pubmed/26813686 [ID No:2]
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