NetMHCII 2.2 Server
NetMHCII 2.2 server predicts binding of peptides
to HLA-DR, HLA-DQ, HLA-DP and mouse MHC class II alleles using articial neuron networks.
Predictions can be obtained for 14 HLA-DR alleles covering the 9 HLA-DR supertypes, six HLA-DQ, six HLA-DP,
and two mouse H2 class II alleles.
The prediction values are given in nM IC50 values, and as a %-Rank to a set of 1,000,000 random natural peptides.
Strong and weak binding peptides are indicated in the output.
Update as of 29/9/2011. The accuracy of the peptide binding core identification has been improved using
a neural network alignment procedure. This has made obsolete the need for P1 amino acids encoding. Recomended
use of the server is hence without P1 encode. This is now the default setting of the method and gives optimal
performance both in term of binding core identification and binding affinity prediction.
Update as of 29/11/2011. The allele naming for HLA-DPA10301-DPB10401 was wrong. The typing of this
molecule is incomplete. The beta chain is either DPB10301 or DPB10401. The alpha chain is DPA10103. This
is now reflected in the name used for this allele (HLA-DPA10103-HLA-DPB10301_DPB10401).
Update as of 03/02/2012. The accuracy of the peptide binding core identification has been improved using
a neural network alignment procedure for all alleles. The network alignment procedure is described in
This procedure does NOT affect the predicted binding values.
View the version history of this server.
All the previous versions are available on line, for comparison and