Nomenclature for factors of the <scp>HLA</scp> system, update <scp>D</scp>ecember 2013

Marsh, Steven G.E.

doi:10.1111/iji.12111

Cited by 6 publications

(5 citation statements)

References 13 publications

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“…PBMC's of those 13 individuals were used for full length group‐specific RNA SBT sequencing which resulted in the identification of all exons. Results were submitted to the EMBL and IMGT/HLA databases and assigned as confirmatory sequences by the World Health Organization (WHO) Nomenclature Committee . The EMBL accession and IMGT/HLA submission numbers are shown in Table .…”

Section: Resultsmentioning

confidence: 99%

An improved and validated RNA HLA class I SBT approach for obtaining full length coding sequences

et al. 2014

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The functional relevance of human leukocyte antigen (HLA) class I allele polymorphism beyond exons 2 and 3 is difficult to address because more than 70% of the HLA class I alleles are defined by exons 2 and 3 sequences only. For routine application on clinical samples we improved and validated the HLA sequence-based typing (SBT) approach based on RNA templates, using either a single locus-specific or two overlapping group-specific polymerase chain reaction (PCR) amplifications, with three forward and three reverse sequencing reactions for full length sequencing. Locus-specific HLA typing with RNA SBT of a reference panel, representing the major antigen groups, showed identical results compared to DNA SBT typing. Alleles encountered with unknown exons in the IMGT/HLA database and three samples, two with Null and one with a Low expressed allele, have been addressed by the group-specific RNA SBT approach to obtain full length coding sequences. This RNA SBT approach has proven its value in our routine full length definition of alleles.

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Section: Resultsmentioning

confidence: 99%

An improved and validated RNA HLA class I SBT approach for obtaining full length coding sequences

et al. 2014

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“…The IMGT/HLA Database is updated every three months, and the number of named HLA gene and pseudogene sequences increases with each update. For example, 9,946 HLA alleles had been named as of December of 2013[6]; this number increased to 12,242 in December of 2014[7], and 12,542 HLA alleles have been named as of January of 2015. Increases in the number of new allele sequences included in the database have followed the adoption of new genotyping technologies by the Histocompatibility and Immunogenetics (H&I) community, often in conjunction with international HLA and immunogenetics workshops (IHIWs).…”

Section: Introductionmentioning

confidence: 99%

A Gene Feature Enumeration Approach for Describing HLA Allele Polymorphism

Mack¹

2015

Preprint

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HLA genotyping via next generation sequencing (NGS) poses challenges for the use of HLA allele names to analyze and discuss sequence polymorphism. NGS will identify many new synonymous and non-coding HLA sequence variants. Allele names identify the types of nucleotide polymorphism that define an allele (non-synonymous, synonymous and non-coding changes), but do not describe how polymorphism is distributed among the individual features (the flanking untranslated regions, exons and introns) of a gene. Further, HLA alleles cannot be named in the absence of antigen-recognition domain (ARD) encoding exons. Here, a system for describing HLA polymorphism in terms of HLA gene features (GFs) is proposed. This system enumerates the unique nucleotide sequences for each GF in an HLA gene, and records these in a GF enumeration notation that allows both more granular dissection of allele-level HLA polymorphism, and the discussion and analysis of GFs in the absence of ARD-encoding exon sequences. Abbreviations ARDAntigen Recognition Domain EMLBEuropean Molecular Biology Laboratory GFGene Feature GFEGene Feature Enumeration HLAHuman Leucocyte Antigen IHIWInternational HLA and Immunogenetics Workshop IMGTImMunoGeneTics NGSNext Generation Sequencing UTRUntranslated Region

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“…The name HLA‐A*31:74 has been officially assigned by the World Health Organization (WHO) Nomenclature Committee in March 2013. This follows the agreed policy that, subject to the conditions stated in the most recent Nomenclature Report, names will be assigned to new sequences as they are identified. Lists of such new names will be published in the following WHO Nomenclature Report.…”

mentioning

confidence: 98%

A novel HLA‐A allele, A31:74*, was identified by sequence‐based typing in a Chinese potential donor

Zhuang²,

Zhao³

2019

HLA

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Nomenclature for factors of the HLA system, update December 2013

Cited by 6 publications

References 13 publications

An improved and validated RNA HLA class I SBT approach for obtaining full length coding sequences

An improved and validated RNA HLA class I SBT approach for obtaining full length coding sequences

A Gene Feature Enumeration Approach for Describing HLA Allele Polymorphism

A novel HLA‐A allele, A31:74*, was identified by sequence‐based typing in a Chinese potential donor

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Nomenclature for factors of the HLA system, update December 2013

Cited by 6 publications

References 13 publications

An improved and validated RNA HLA class I SBT approach for obtaining full length coding sequences

An improved and validated RNA HLA class I SBT approach for obtaining full length coding sequences

A Gene Feature Enumeration Approach for Describing HLA Allele Polymorphism

A novel HLA‐A allele, A*31:74, was identified by sequence‐based typing in a Chinese potential donor

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Product

Resources

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A novel HLA‐A allele, A31:74*, was identified by sequence‐based typing in a Chinese potential donor