Unknown

Dataset Information

0

NetMHCpan-4.0: Improved Peptide-MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data.


ABSTRACT: Cytotoxic T cells are of central importance in the immune system's response to disease. They recognize defective cells by binding to peptides presented on the cell surface by MHC class I molecules. Peptide binding to MHC molecules is the single most selective step in the Ag-presentation pathway. Therefore, in the quest for T cell epitopes, the prediction of peptide binding to MHC molecules has attracted widespread attention. In the past, predictors of peptide-MHC interactions have primarily been trained on binding affinity data. Recently, an increasing number of MHC-presented peptides identified by mass spectrometry have been reported containing information about peptide-processing steps in the presentation pathway and the length distribution of naturally presented peptides. In this article, we present NetMHCpan-4.0, a method trained on binding affinity and eluted ligand data leveraging the information from both data types. Large-scale benchmarking of the method demonstrates an increase in predictive performance compared with state-of-the-art methods when it comes to identification of naturally processed ligands, cancer neoantigens, and T cell epitopes.

SUBMITTER: Jurtz V 

PROVIDER: S-EPMC5679736 | biostudies-literature | 2017 Nov

REPOSITORIES: biostudies-literature

altmetric image

Publications

NetMHCpan-4.0: Improved Peptide-MHC Class I Interaction Predictions Integrating Eluted Ligand and Peptide Binding Affinity Data.

Jurtz Vanessa V   Paul Sinu S   Andreatta Massimo M   Marcatili Paolo P   Peters Bjoern B   Nielsen Morten M  

Journal of immunology (Baltimore, Md. : 1950) 20171004 9


Cytotoxic T cells are of central importance in the immune system's response to disease. They recognize defective cells by binding to peptides presented on the cell surface by MHC class I molecules. Peptide binding to MHC molecules is the single most selective step in the Ag-presentation pathway. Therefore, in the quest for T cell epitopes, the prediction of peptide binding to MHC molecules has attracted widespread attention. In the past, predictors of peptide-MHC interactions have primarily been  ...[more]

Similar Datasets

| S-EPMC7319546 | biostudies-literature
| S-EPMC4481849 | biostudies-other
| S-EPMC6240193 | biostudies-literature
| S-EPMC3319061 | biostudies-literature
| S-EPMC2822856 | biostudies-literature
| S-EPMC3925504 | biostudies-literature
| S-EPMC2267221 | biostudies-literature
| S-EPMC2875469 | biostudies-literature
| S-EPMC4637192 | biostudies-literature
| S-EPMC2265549 | biostudies-literature