NetMHCII 2.3 Server

NetMHCII 2.3 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 25 HLA-DR alleles, 20 HLA-DQ, 9 HLA-DP, and 7 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.

View the version history of this server. All the previous versions are available on line, for comparison and reference.

 
Instructions Output format Article abstract Training and Evaluation Data

SUBMISSION

Type of input

Paste a single sequence or several sequences in FASTA format into the field below:

or submit a file in FASTA format directly from your local disk:

Peptide length  

Select Loci

Select Allele (max 15 per submission) or type allele names (ie DRBX_XXXX) seperated by commas (max 15 per submission)  


Threshold  
Threshold for strong binder (% Rank)  
Threshold for weak binder (% Rank)  
Sort by affinity 

Restrictions:
At most 5000 sequences per submission; each sequence not more than 20,000 amino acids and not less than 9 amino acids.

Confidentiality:
The sequences are kept confidential and will be deleted after processing.


CITATIONS

For publication of results, please cite:

  • Improved methods for predicting peptide binding affinity to MHC class II molecules.
    Jensen KK, Andreatta M, Marcatili P, Buus S, Greenbaum JA, Yan Z, Sette A, Peters B, and Nielsen M.
    PMID: 29315598

PORTABLE VERSION

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


GETTING HELP

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