| HLAgazeteer {HLAtools} | R Documentation |
Functional and Organizational Categories of Genes Supported by the IPD-IMGT/HLA Database
Description
A list object of nineteen vectors that identify genes in the HLA region that share specific commonalities. This object is built by the buildGazeteer() function.
Usage
data(HLAgazeteer)
Format
A large list of 19 vectors that define specific categories of genes supported by the IPD-IMGT/HLA Database
.
(align: all genes with alignments in the IPD/IMGT-HLA GitHub Repository)
(gen: genes with genomic alignments in the IPD/IMGT-HLA GitHub Repository)
(nuc: genes with nucleotide alignments in the IPD/IMGT-HLA GitHub Repository)
(prot: genes with protein alignments in the IPD/IMGT-HLA GitHub Repository)
(nogen: genes with no genomic alignments)
(nonuc: genes with no nucleotide alignments)
(noprot: genes with no protein alignments)
(pseudo: pseudogenes)
(frag: gene fragments)
(hla: HLA genes)
(expressed: genes that are expressed)
(notexpressed: genes that are not expressed)
(classireg: genes found in the HLA class I region)
(classihla: class I HLA genes)
(classiireg: genes found in the HLA class II region)
(classiihla: class II HLA genes)
(classical: classical HLA genes)
(nonclassical: non-classical HLA genes)
(map: all genes organized by 5' to 3' map order on the genomic reference + strand)
(version: IPD-IMGT/HLA Database version used to build the HLAgazeteer)
Source
https://hla.alleles.org/genes
https://github.com/ANHIG/IMGTHLA/tree/Latest/alignments
Andersson Front. Biosci. 1998, 3(4), 739–745. https://doi.org/10.2741/a317
Alexandrov et al. HLA 2023, Vol.102(5), p.599-606. https://doi.org/10.1111/tan.15180
https://www.ncbi.nlm.nih.gov/nucleotide/NC_000009.12