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NetTepi 1.0 Server

NetTepi 1.0 predicts T-cell epitopes from protein sequences. The method integrates three prediction types, peptide-MHC binding affinity, peptide-MHC stability and T-cell propensity.

The server allows for predictions of T-cell epitopes restricted to 13 different Human MHC (HLA) alleles representing 11 of the 12 common HLA-A and B Supertypes as defined by Lund et al (2004).

Predictions of lengths 8-14: Predictions can be made for lengths between 8 and 14 for all alleles using an approximation algorithm. Note that only lengths 9 and 10 have been thoroughly benchmarked. Caution should be taken with predictions for all other lengths.

Prediction values are calculated as a weighted sum of binding affinity, stability and T-cell propensity prediction scores. A % Rank score based on predictions for 200.000 random natural peptides is also provided.

Peptide-MHC binding affinity predictions are obtained using the NetMHCcons method. Peptide-MHC stability predictions are obtained using the NetMHCstab method. T-cell propensity is predicted using the immunogenicity model described by Calis et al (2013).

Note as of 5 dec 2016 the server has been updated to make affinity predictions using NetMHCcons-1.1. Old functionality can be recovered following the link Earlier functionality.

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 (several lengths are possible): 

Select loci/species

Select Allele(s) or type allele names (ie HLA-A01:01) separated by commas (and no spaces).

For list of allowed allele names click here List of MHC allele names.

Relative weight on stability prediction: 
Relative weight on T cell propensity prediction: 

Sort by score  

Save prediction to xls file 

Restrictions:
At most 5000 sequences per submission; each sequence not more than 20,000 amino acids and not less than 8 amino acids.

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


CITATIONS

For publication of results, please cite:

NetTepi: an integrated method for the prediction of T cell epitopes. Trolle T, Nielsen M. Immunogenetics (2014). 66(7-8):449-56.




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