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MHCcluster 1.0 Server

The MHC genomic region in most species is extremely polymorphic. The distinct specificity of the majority of the MHC molecules remains uncharacterized. The MHCcluster is a tool to functionally cluster MHC class I molecules (MHCI) based on their predicted binding specificity. The tool provides highly intuitive heat-map and graphical tree-based visualizations of the functional relationship between MHC class I and class II variants.

For MHC class I, peptide binding predictions are made using NetMHCcons PMID 22009319, for MHC class II, peptide binding predictions are made using NetMHCIIpan PMID 21073747.

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

Number of peptides to include  

Number of Bootstrap calculations 

Select MHC class: 

Select allele set/loci/species to include in tree
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.


or paste full length MHC protein sequence(s) in FASTA format into the field below:

or submit a file containing full length MHC protein sequence(s) in FASTA format directly from your local disk:

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:

  • MHCcluster, a method for functional clustering of MHC molecules,
    Morten Nielsen, Ole Lund and Claus Lundegaard,
    ISCB-Latin conference proceeding, 2012.


GETTING HELP

Scientific problems:        Technical problems:       

This file was last modified Tuesday 23rd 2012f October 2012 17:43:23 GMT