WMDA Directory

HLA Nomenclature in WMDA file format

At the request of the IT Working Group of the World Marrow Donor Association (WMDA), we are making a number of computer readable files available. These files will document: the official WHO HLA Nomenclature, the relationships between serologically defined antigens and the relationships between HLA allele sequences and their serologically defined antigens. Updated versions of these files will be released every three months at the time new versions of the IMGT/HLA Database become available.

If you are regular user of these files and would like to be kept updated of any changes to the files, please email hla [at] alleles [dot] org and ask to be added to our WMDA mailing list.

All five files have a short header with four lines of information, indicating:

hla_nom.txt (Download the hla_nom.txt file )

This file contains details of all current and deleted HLA antigens and alleles, and is sorted by locus and antigen/allele number:

Please note that for HLA Antigen names assigned before November 1987, the dates given are only approximate.

This file includes six fields of information, each separated by a semi-colon (;).

HLA Locus HLA Antigen or Allele name Date Assigned (YYYYMMDD) Date Deleted (YYYYMMDD) Deleted Antigen/Allele Identical to Reason for Deletion
A 1 19680101


A* 0105N 19990216 20010717 01:04N Sequence Identical

 

hla_nom_g.txt (Download the hla_nom_g.txt file )

HLA alleles that have identical nucleotide sequences across the exons encoding the peptide binding domains (exon 2 and 3 for HLA class I and exon 2 only for HLA class II alleles) will be designated by an upper case ‘G’ which follows the first 3 fields of the allele designation of the lowest numbered allele in the group. The full list of these groups is available at the G Groups page. A computer readable version is also available, this file includes three fields of information, each separated by a semi-colon (;).

HLA Locus Alleles within designated group G group name (if available)
A* 01:01:01:01/01:01:01:02N/01:04N/01:22N/01:32/01:34N/01:37/01:45 01:01:01G
A* 01:01:02  

Please note that several DRB alleles are not sequenced for the dimorphic nucleotide at position 357. It would therefore be inaccurate to assign a base to these sequences at this position. For this reason the sequences have been truncated to include only nucleotides 101 to 356, in the DRB analysis.

hla_nom_p.txt (Download the hla_nom_p.txt file )

This file contains details of all HLA Sequences having the same antigen binding domains. This analysis is performed on the polypeptide sequence, and for HLA Class I alleles, identity in the 'antigen binding domains' is based on identical protein sequences as encoded by exons 2 and 3. For HLA Class II alleles this is based on identical protein sequences as encoded by exon 2. HLA alleles having nucleotide sequences that encode the same protein sequence for the peptide binding domains (exon 2 and 3 for HLA class I and exon 2 only for HLA class II alleles) will be designated by an upper case ‘P’ which follows the 2 field allele designation of the lowest numbered allele in the group. The full list of these groups is available at the P Groups page. A computer readable version is also available, this file replaces the file previously called abdm.txt and includes three fields of information, each separated by a semi-colon (;).

HLA Locus Alleles within designated group P group name (if available)
A* 01:01:01:01/01:01:02/01:01:03/01:01:04/01:01:05/01:01:06/01:01:07/01:01:08/01:01:09/
01:01:10/01:01:11/01:01:12/01:01:13/01:32/01:37/01:45
01:01P
A* 01:02  

Several DRB alleles are not sequenced for the dimorphic nucleotide at position 357. It would therefore be inaccurate to assign a base to these sequences at this position. For this reason the sequences have been truncated to include only the translated sequence of nucleotides 101 to 356, in the DRB analysis.

rel_ser_ser.txt ( Download the rel_ser_ser.txt file )

This file lists the relationships between all current serologically defined HLA antigens: broad antigens, split antigens and associated antigens.

This file includes four fields of information, each separated by a semi-colon (;). The file lists only those antigens for which split or associated antigens exist. Multiple values are separated by a forward slash (/).

HLA Locus HLA Antigen name (digits only) Split HLA Antigens Associated HLA Antigens
A 2
203/210
A 9 23/24
A 10 25/26/34/66

 

rel_dna_ser.txt ( Download the rel_dna_ser.txt file )

This file contains details of all current HLA alleles and where known their unambiguous, possible or assumed serologically equivalent antigens.

Details of the unambiguous serology is defined from submissions to the WHO Nomenclature Committee for Factors of the HLA System (1) at the time an allele is submitted for naming, or from the WMDA HLA Dictionary 2004 (2). For Null alleles a value of zero (0) is given and for alleles with no corresponding antigen a question mark (?) is given.

In cases where an allele has been shown to be associated with more than one serologically defined antigen, these are indicated in the 'Possible Serology' field. Multiple values are separated by a forward slash (/). In cases where there is currently no information about the serological equivalent of an allele, the 'Assumed Serology' field contains the antigen equivalent as expected by the first two digits of the allele name.

This file contains details of all current HLA antigens and alleles, and is sorted by locus and allele number:

This file includes five fields of information, each separated by a semi-colon (;).

HLA Locus HLA Antigen/ Allele name Unambiguous Serology Possible Serology Assumed Serology Expert Assigned Exceptions
A* 01:01:01 1


A* 01:04N 0


A* 01:10

1
A* 02:01:01:02L
0/2

A* 02:03:01 203


B* 13:04
15/21
13
B* 83:01 ?


md5checksum.txt ( Download the md5checksum.txt file )

This file contains an md5 fingerprint for each file allowing verification of the downloads.

Release Archive

A compressed (zip) archive of the WMDA files from Release 3.0 (2010-04) to the current release is provided below.

Release Date Archive Comments
3.0.0 2010-04 wmda_300.zip  
3.1.0 2010-07 wmda_310.zip The allele B*40:144N was incorrectly listed as B*40:144 in the B*40:02:01G group listing in the hla_nom_g.txt file, this has been corrected in the Jan-2013 update.
The data assigned to the allele A*26:43:02 in the hla_nom.txt has been changed to 20100630, to be consistent with the other hla_nom.txt files.
3.2.0 2010-10 wmda_320.zip The allele A*11:69N was incorrectly listed as A*11:69 in the A*11:01:01G group listing in the hla_nom_g.txt file, this has been corrected in the Jan-2013 update.
The DQA1*03:01:01G group was ommitted from the hla_nom_g.txt file, this was corrected in the Jan-2013 update.
3.3.0 2011-01 wmda_330.zip  
3.4.0 2011-04 wmda_340.zip

The generation of G groups for DRB alleles prior to this release was based on nucleotides 101-356 and not the complete exon 2 seqeunce. In Release 3.4, the DRB G groups were modified to represent identity accross the whole of the exon 2 sequence. There are therefore differences between the DRB G groups reported in this release and those seen in Releases 3.0 to 3.3.

3.5.0 2011-07 wmda_350.zip  
3.6.0 2011-10 wmda_360.zip  
3.7.0 2012-01 wmda_370.zip  
3.8.0 2012-04 wmda_380.zip  
3.9.0 2012-07 wmda_390.zip  
3.10.0 2012-10 wmda_3100.zip The G group A*33:01:01G contains as a single allele following the deletion of A*33:38. Following the modification or deletion of an allele sequence a G group may contain only a single allele, in these cases the G group is retained and can refer to single allele.
3.11.0 2013-01 wmda_3110.zip The G group A*24:02:03G which was retired in the 3.7.0 release, has been reinstated as a single allele G group in this release.
The date for C*07:295 was corrected in the hla_nom file on 2013-01-21.
3.12.0 2013-04 wmda_3120.zip  
3.13.0 2013-07 wmda_3130.zip  

3.13.1

2013-07 wmda_3131.zip The alelles DQB1*02:90 and DQB1*02:91 were renamed DQB1*02:32 and DQB1*02:33 respectively.

3.14.0

2013-10 wmda_3140.zip  

3.15.0

2014-01 wmda_3150.zip  

3.16.0

2014-01 wmda_3160.zip The hla_nom_g.txt was updated, 2014-04-22, as the DQA G Groups were not included in the original version.

3.17.0

2014-01 wmda_3170.zip  

 

References:

  1. Marsh SGE, Albert ED, Bodmer WF et al. Nomenclature for Factors of the HLA System, 2004.
    Tissue Antigens. 2005 65:301-69
    International Journal of Immunogenetics. 2005 32:107-60
    Human Immunology. 2005 66:571-636
    Click here to download a copy of this report as published in Tissue Antigens is available courtesy of Wiley Blackwell.
  2. Schreuder GMTh, Hurley CK, Marsh SGE et al. The HLA Dictionary 2004: a summary of HLA-A, -B, -C, -DRB1/3/4/5, -DQB1 alleles and their association with serologically defined HLA-A, -B, -C, -DR and -DQ antigens.
    Tissue Antigens. 2005 65:1-55
    Human Immunology. 2005 66:170-210
    International Journal of Immunogenetics. 2005 32:19-69
    Click here to download a copy of this report as published in Tissue Antigens is available courtesy of Wiley Blackwell.