NetMHCpan 2.1 Server
NetMHCpan server predicts binding of peptides
to any known MHC molecule using artificial neural networks
(ANNs). The method is trained on close to 88,000 quantitative binding data covering more than
80 different MHC molecules. Predictions can be made for HLA-A, B, C, E and G alleles, as well
as for non-human primates, mouse and pig. Further the user can upload full length MHC protein sequences, and
have the server predict MHC restricted peptides from any given protein of interest.
Predictions can be made for 8-11 mer peptides. Note that all non 9mer predictions are
made using approximations. Most HLA molecules have a strong preference for binding 9mers.
The prediction values are given in nM IC50 values and as %-Rank to a set of 1000.000 random natural peptides.
For alleles distant to the MHC molecules included in the training of the method, only the Rank score is provided.
The project is a collaboration between CBS and
View the version history of this server.
All the previous versions are available on line, for comparison and
For publication of results, please cite:
NetMHCpan - MHC class I binding prediction beyond humans
Ilka Hoof, Bjoern Peters, John Sidney, Lasse Eggers Pedersen, Ole Lund, Soren Buus, and Morten Nielsen
Data resources used to develop this server was obtained from
- IEDB database.
- Quantitative peptide binding data were obtained
from the IEDB database.
- IMGT/HLA database. Robinson J, Malik A, Parham P, Bodmer JG,
Marsh SGE: IMGT/HLA - a sequence database for the human major histocompatibility complex. Tissue Antigens (2000),
- HLA protein sequences were obtained from the IMGT/HLA database (version 2.17.0).
Would you prefer to run NetMHCpan at your own site? NetMHCpan v. 2.0
is available as a stand-alone software package, with the same
functionality as the service above. Ready-to-ship packages
exist for the most common UNIX platforms. There is a
for academic users; other users are requested to contact
CBS Software Package Manager at