NetMHCII 1.0a Server NetMHCII 1.0a 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 The prediction values are given in nM IC50 values, and strong and weak binding peptides are indicated in the output. The method is trained on the data publised by Wang et al. PLoS Comput Biol. 2008 Apr 4;4(4). The 10 fold cross validated performance of the method can be found at Wang Benchmark

Instructions

Output format

Article abstract

Data

CITATIONS

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: Full text

NOTE! The published version of the manuscript has an inconsistent reference listing. For a correct reference listing click here

PORTABLE VERSION

Would you prefer to run NetMHCII-1.0a at your own site? NetMHCII v. 1.0a 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 download page for academic users; other users are requested to contact CBS Software Package Manager at software@cbs.dtu.dk.

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