Format

Send to

Choose Destination
Immunology. 2018 Jul;154(3):394-406. doi: 10.1111/imm.12889. Epub 2018 Feb 6.

Improved methods for predicting peptide binding affinity to MHC class II molecules.

Author information

1
Department of Bio and Health Informatics, Technical University of Denmark, Lyngby, Denmark.
2
Instituto de Investigaciones Biotecnológicas, Universidad Nacional de San Martín, Buenos Aires, Argentina.
3
Department of Immunology and Microbiology, Faculty of Health Sciences, University of Copenhagen, Copenhagen, Denmark.
4
Bioinformatics Core Facility, La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA.
5
Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA, USA.
6
Department of Medicine, University of California San Diego, La Jolla, CA, USA.

Abstract

Major histocompatibility complex class II (MHC-II) molecules are expressed on the surface of professional antigen-presenting cells where they display peptides to T helper cells, which orchestrate the onset and outcome of many host immune responses. Understanding which peptides will be presented by the MHC-II molecule is therefore important for understanding the activation of T helper cells and can be used to identify T-cell epitopes. We here present updated versions of two MHC-II-peptide binding affinity prediction methods, NetMHCII and NetMHCIIpan. These were constructed using an extended data set of quantitative MHC-peptide binding affinity data obtained from the Immune Epitope Database covering HLA-DR, HLA-DQ, HLA-DP and H-2 mouse molecules. We show that training with this extended data set improved the performance for peptide binding predictions for both methods. Both methods are publicly available at www.cbs.dtu.dk/services/NetMHCII-2.3 and www.cbs.dtu.dk/services/NetMHCIIpan-3.2.

KEYWORDS:

MHC binding specificity; T-cell epitope; affinity predictions; immunogenic peptides; peptide-MHC binding

PMID:
29315598
PMCID:
PMC6002223
[Available on 2019-07-01]
DOI:
10.1111/imm.12889

Supplemental Content

Full text links

Icon for Wiley
Loading ...
Support Center