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- W2051224872 abstract "A major challenge when selecting T cell epitopes for diagnostic or preventive purposes stems from the vast genomic variation of pathogens and the diversity of the host cellular immune system.Here, we describe a rational epitope selection strategy, called PopCover that aims at dealing with both of these challenges. The method integrates pan-specific MHC binding predictions with information about MHC allelic prevalence in a given population, and select pools of peptides that in concert will provide broad coverage of both pathogen genomic and the HLA diversity.The method was benchmarked against HIV as a case story. A small set of Gag, Nef, Tat and Pol peptides were selected from a large set of full sequenced HIV genomes covering the 5 major subtypes to provide optimal class II epitope coverage of a population with Caucasian HLA prevalence. Using the PopCover method these peptide pools were, in a simulation experiment, demonstrated to provide potential epitope coverage of between 52% and 100% of virtual patient infected with HIV. These numbers are significantly higher than what was obtained using selection strategies defined by sequence conservation and HLA promiscuity alone." @default.
- W2051224872 created "2016-06-24" @default.
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- W2051224872 date "2010-08-02" @default.
- W2051224872 modified "2023-10-04" @default.
- W2051224872 title "PopCover" @default.
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- W2051224872 doi "https://doi.org/10.1145/1854776.1854905" @default.
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