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IPD - The Immuno Polymorphism Database provides specialist databases for the study of polymorphism in genes of the immune system.
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EBI Databases Nucleotide Databases IMGT/HLA

IMGT/HLA Database

FTP Directory

The IMGT/HLA Database provides an FTP site for the retrieval of sequences in a number of pre-formatted files. The sequence are provided as FASTA, PIR and MSF formats, as well as an archive of the sequence alignments and a flat file formatted copy of the database. Descriptions of each file type is available below.

The FTP directory is available at the following address:

Terms of Use

The files within the FTP directory are copyrighted by the IMGT/HLA Database, see http://www.eb.ac.uk/imgt/hla/licence.html and distributed under the Creative Commons Attribution-NoDerivs License.

File Formats

 

FASTA, PIR and MSF Formats

The FTP directory contains files in a number of file formats, further information on these formats can be found at: http://www.ebi.ac.uk/help/formats.html. All PIR and MSF files have been generated using "ReadSeq", a freely available sequence format conversion program written by D. Gilbert.

 

Sequence Alignments

A text file version of all the sequences alignments at both the nucleotide and protein level is provided as a zip file. Zip files are compressed archives and can be opened using many utilities like Winzip (Windows), Stuffit (Mac) and Gunzip (Unix). The files in the archives use the following naming conventions:

  • locus_nuc.txt - nucleotide CDS alignment

  • locus_gen.txt - genomic nucleotide alignments
  • locus_prot.txt - protein alignment
  • ClassI_nuc.txt - nucleotide alignment of HLA-A, B and C alleles

Flat Files (hla.dat)

Please read the documentation provided in the FTP directory or the online documentation for a description of the flat file format.

 

Archive Folder

All files released under the pre-2010 nomenclature designations and previously available from the FTP directory can now be found in the archive sub-directory.

Information

For more information about the database, IMGT/HLA queries (including website) or to subscribe to the IMGT/HLA mailing list please contact IMGT/HLA Support.

Please see our licence for our terms of use.

 


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