NetCleave: An Open-Source Algorithm for Predicting C-Terminal Antigen Processing for MHC-I and MHC-II.
Antigen processing
Bioinformatics
Epitope predictor
HLA
Immune system
Immunoinformatics
MHC-I
MHC-II
Neural networks
T cells
Journal
Methods in molecular biology (Clifton, N.J.)
ISSN: 1940-6029
Titre abrégé: Methods Mol Biol
Pays: United States
ID NLM: 9214969
Informations de publication
Date de publication:
2023
2023
Historique:
medline:
2
6
2023
pubmed:
1
6
2023
entrez:
31
5
2023
Statut:
ppublish
Résumé
T cell epitopes presented on the surface of mammalian cells are subjected to a complex network of antigen processing and presentation. Among them, C-terminal antigen processing constitutes one of the main bottlenecks for the generation of epitopes, as it defines the C-terminal end of the final epitope and delimits the peptidome that will be presented downstream. Previously (Amengual-Rigo and Guallar, Sci Rep 111(11):1-8, 2021), we demonstrated that NetCleave stands out as one of the best algorithms for the prediction of C-terminal processing, which in its turn can be crucial to design peptide-based vaccination strategies. In this chapter, we provide a pipeline to exploit the full capabilities of NetCleave, an open-source and retrainable algorithm for predicting the C-terminal antigen processing for the MHC-I and MHC-II pathways.
Identifiants
pubmed: 37258917
doi: 10.1007/978-1-0716-3239-0_15
doi:
Substances chimiques
Epitopes, T-Lymphocyte
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
211-226Informations de copyright
© 2023. The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature.
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