The HLA alleles and the allele alignments data are obtained from IMGT/HLA database (IMGT/HLA release version 3.10.0, October, 2012). Please refer the following publications for information regarding the IMGT/HLA database and the hla.allele.org database:
A complete list of all of the HLA sequence features and their variant types can be found in the Supplemental Tables to Karp et al (2010) Human Molecular Genetics 19(4):707-719.
For more information on the sources of data for the MHC component in ImmPort, please see below.
Fields marked with an asterisk * are required.
To find allele records for a given MHC locus:
To view alignments for a specific allele or set of alleles:
To view sequence features and sequence feature variant types for a specific allele or set of alleles:
|Allele Search Using Option||Example Allele Search Text|
|Allele Name||A*02:07 or A*0207, or 02:07 or 0207or any comma-delimited combination|
|IMGT Accession Number||HLA00012 or 00012|
|IMGT/HLA G-Code Group Code||A*01:01:01G or 01:01:01G or A*01:01:01 or 01:01:01|
|IMGT/HLA P-Code Group Code||A*01:01P or 01:01P or A*01:01 or 01:01|
|Protein Sequence||FASTA sequence (no spaces)|
|Transcript Sequence||FASTA sequence (no spaces)|
|--||Common and Well-Documented (CWD) HLA alleles refer to those alleles that have gene frequencies of > 0.001 in any reference population or have been observed in at least three independent, unrelated individuals.|
|--||G-codes describe groups of HLA alleles with identical sequences in the exons encoding the MHC antigen recognition site (exons 2 & 3 in class I MHC genes and exon 2 in class II MHC genes).|
|--||CWD alleles and g-codes are described in the paper, "Common and Well-Documented HLA alleles: Report of the Ad-Hoc Committee of the American Society for Histocompatibility and Immunogenetics" .|
|--||G-code grouping data was enhanced with ambiguity typing data obtained from Anthony Nolan, [IMGT/HLA Database].|
|--||Population data used for generation of allele frequencies was obtained from dbMHC, [Human Anthropology].|
|--||HLA sequence features and their variant types are described in the paper "Novel sequence feature variant type analysis of the HLA genetic association in systemic sclerosis" . Tables containing detailed descriptions of all HLA SFVTs can be found here.|