NetMHCII 1.0 Server
NetMHCII 1.0 server predicts binding of peptides
to a number of different HLA-DR alleles using position specific
weight matrices (PSSM).
Predictions can be obtained for 14 HLA-DR alleles covering the 9 HLA-DR supertypes, and three mouse H2-IA alleles.
The prediction values are given in nM IC50 values, and strong and weak
binding peptides are indicated in the output.
For publication of results, please cite:
Prediction of MHC class II binding affinity using SMM-align, a novel
stabilization matrix alignment method.
Morten Nielsen*, Claus Lundegaard, and Ole Lund.
BMC Bioinformatics: 8: 238, 2007.
View the abstract, the full text version at BMC Bioinformatics:
NOTE! The published version of the manuscript has an inconsistent reference listing. For a
correct reference listing click here
Would you prefer to run ...NetMHCII at your own site? NetMHCII v. 1.0
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