Epitope Discovery with Phylogenetic Hidden Markov Models

  title={Epitope Discovery with Phylogenetic Hidden Markov Models},
  author={Miguel Lacerda and Konrad Scheffler and Cathal Seoighe},
  booktitle={Molecular biology and evolution},
Existing methods for the prediction of immunologically active T-cell epitopes are based on the amino acid sequence or structure of pathogen proteins. Additional information regarding the locations of epitopes may be acquired by considering the evolution of viruses in hosts with different immune backgrounds. In particular, immune-dependent evolutionary patterns at sites within or near T-cell epitopes can be used to enhance epitope identification. We have developed a mutation-selection model of T… CONTINUE READING