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CBS >> CBS Prediction Servers >> HLArestrictor-1.0

HLArestrictor 1.0 Server

HLArestrictor is a tool for patient-specific predictions of HLA restriction elements and optimal epitopes within peptides or proteins. Given the high-resolution (i.e. 4-digit) HLA typing of the individual, HLArestrictor predicts all 8-11mer peptide-binders within one or more larger peptides and provides an overview of the predicted HLA restrictions and minimal epitopes.

The project is a collaboration between CBS, and IMMI

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

Instructions Output format Article abstract

SUBMISSION

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

Submit a file in FASTA format directly from your local disk:

Select allele subtype

or type host allele names (ie HLA-A0101 or A0101) separated by commas. . 

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

Peptide length 

Sort mode: 

Sort method

Sort predictions based on %rank score. Prediction are labeled Weak binder and Strong binder according to the thresholds defined below. Peptides are labeled Combined binder if %rank is less than the %rank weak binders threshold and the IC50 value (if defined) is stronger than the affinity weak binding threshold.

Threshold for strong binder (% Rank)  Threshold for strong binder (IC50) 
Threshold for weak binder (% Rank)    Threshold for weak binder (IC50)   

Number of predictions to show per peptide (0:report down to 2 x weak-binding cutoff.  

Show non-binders with a score of factor*weak binding threshold, 1 means no non-binders are shown.  

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

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

CITATIONS

For publication of results, please cite:

  • The HLArestrictor
    Malene mm

PORTABLE VERSION

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

GETTING HELP

Scientific problems:        Technical problems:       

This file was last modified Thursday 14th 2010f October 2010 12:15:21 GMT