NetMHC 3.0 Server
NEW UPDATED VERSION: NetMHC-3.2
STAND ALONE VERSION: 3.0 Download for academics
NetMHC 3.0 server predicts binding of peptides to a number of different HLA alleles using artificial neural networks (ANNs) and weight matrices.
View the version history of this server. All the previous versions are available on line, for comparison and reference.
Predictions can be obtained for 12 human supertypes including more than 100 individual human alleles using ANNs and PSSMs (ungapped HMMs). Furthermore 16 animal (Monkey and Mouse) allele predictions are available. ANNs have been trained for 43 different Human MHC (HLA) alleles representing all 12 HLA A and B Supertypes as defined by Lund et al. (2004). Weight matrices are generated using an ungapped HMM approach as described in Nielsen et al. (2004) with data from the SYFPEITHI database.
For ANN prediction values are given in nM IC50 values. For weight matrices prediction values are given as a fitness score, so that a high fitness score correlates to strong binding.
Predictions of lengths 8-11: Predictions can be made for lengths between 8 and 11 for all alleles using an novel approximation algorithm using ANNs trained on 9mer peptides. Probably because of the limited amount of available 10mer data this method has a better predictive value than ANNs trained on 10mer data. However, caution should be taken for 8mer predictions as some alleles might not bind 8mers to any significant extend.
For both ANN and weight matrix predictions strong and weak binding peptides are indicated in the output. In the selection window for HLA alleles, the recommended allele for each HLA supertype is indicated.
The project is a collaboration between CBS and IMMI.
For publication of results, please cite:
Would you prefer to run NetMHC at your own site? NetMHC v. 3.0
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
Scientific problems: Technical problems: