NetMHCpan 2.3 Server
NetMHCpan server predicts binding of peptides
to any known MHC molecule using artificial neural networks
(ANNs). The method is trained on more than 110,000 quantitative binding data covering more than
100 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.
NOTE. New in this version. The method as been retrained excluding data for the Mamu-A1*02601 due to contamination
of the training data. Also, the method has been updated to include the newest MHC allele releases from the IMGT/HLA
and IPD-MHC databases (for non-human primates and pig). These updates include adaptation of the new
nomenclature for HLA and Rhesus macaque (Mamu) alleles.
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 200.000 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, IMMI, and LIAI.
View the version history of this server.
All the previous versions are available on line, for comparison and
Link to table (tab seperated) describing the training data Training data table
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
NetMHCpan, a method for quantitative predictions of peptide binding to any HLA-A and -B locus protein of known sequence.
Nielsen M, Lundegaard C, Blicher T, Lamberth K, Harndahl M, Justesen S, Roeder G, Peters B, Sette A, Lund O, Buus S.
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 3.1.0).
Would you prefer to run NetMHCpan at your own site? NetMHCpan v. 2.3
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