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STRs in panel
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COVID-19 research

Gene: HLA-B

Green List (high evidence)

HLA-B (major histocompatibility complex, class I, B)
EnsemblGeneIds (GRCh38): ENSG00000234745
EnsemblGeneIds (GRCh37): ENSG00000234745
OMIM: 142830, Gene2Phenotype
HLA-B is in 5 panels

4 reviews

Sophie Hambleton (Newcastle University)

Green List (high evidence)

Non-Mendelian contribution of allelic variation to disease risk anticipated
Created: 1 May 2020, 10:21 a.m. | Last Modified: 1 May 2020, 10:21 a.m.
Panel Version: 0.171

Mode of pathogenicity
Other

Rebecca Foulger (Genomics England curator)

Comment on list classification: Updated rating from Red to Green. Although not all studies agree on the association of specific HLA-B alleles and SARS infection (e.g. PMIDs 12969506, 15243926), these studies do both report an association. PMID:18186801 do not report an association between tested HLA-B alleles and SARS development, but on balance in-silico evidence also suggests that HLA-B alleles could play a role in modifying the response to the virus. Therefore Green rating is appropriate for this research panel.
Created: 20 Apr 2020, 9 p.m. | Last Modified: 20 Apr 2020, 9 p.m.
Panel Version: 0.120
PMID:15839463 (Umapathy et al., 2004). Full text is unavailable. Title: Absence of HLA B*46 in Indian population: could it be the cause for protection from SARS epidemic?
Created: 20 Apr 2020, 8:53 p.m. | Last Modified: 20 Apr 2020, 8:53 p.m.
Panel Version: 0.119
PMID:18540051 (Roder et al., 2008 examine the crystal structure of HLA-B*1501 in complex with a SARS coronavirus-derived nonapeptide (VQQESSFVM) (full text unavailable at time of curation).
Created: 20 Apr 2020, 8:52 p.m. | Last Modified: 20 Apr 2020, 8:52 p.m.
Panel Version: 0.119
PMID:32303592 (Nguyen et al., 2020) performed in-silico analysis of viral-binding affinity across HLA genotypes for SARS-CoV-2 peptides. Based on in-silico results, they suggest that individuals with HLA-B*46:01 may be vulnerable to COVID-19. Conversely, HLA-B*15:03 may enable greater immunity.
Created: 20 Apr 2020, 8:50 p.m. | Last Modified: 20 Apr 2020, 8:50 p.m.
Panel Version: 0.119
PMID:14595411. Chiu et al, 2003 reviews evidence from PMID:12969506 (Li et al, 2003) that genetic variant HLA-B*4601 might render some groups of people more susceptible to SARS infection. The HLA-B*4601 allele is found in about 10% of the Taiwanese population. 65 suspected SARS patients were tested, so a relatively small study.
Created: 20 Apr 2020, 8:46 p.m. | Last Modified: 20 Apr 2020, 8:46 p.m.
Panel Version: 0.118

Ivone Leong (Genomics England Curator)

The study published in PMID: 12969506 looked at Tawainese patients. PMID: 15243926 looked at 90 patients from Hong Kong who were all genetically unrelated Chinese (18 of these patients had a history of admissions to ICUs and 7 died during the SARS episode). This study identified a strong association between HLA-B*0703 (OR = 4.08; 95% CI, 2.03–8.18; P = 0.00072 [Bonferroni-corrected P value, Pc<.0022]) and the development of SARS. This study did not find any association between HLA-B*4601 and SARS (found in PMID: 12969506).

PMID: 18186801 looked at samples from 95 SARS patients and 403 healthy controls. The cohort of SARS-recovered patients were from Guangzhou and Shenzhen (Southern China) and all are unrelated ethnic Chinese. The healthy controls were sex‐ and age‐matched from in the same geographical area. This study did not find any association between HLA-A, HLA-B and HLA-DRB1 alleles and the development of SARS.
Created: 6 Apr 2020, 10:49 a.m. | Last Modified: 6 Apr 2020, 10:49 a.m.
Panel Version: 0.48

Publications

Ellen McDonagh (Genomics England Curator)

PMID: 12969506 - HLA-B*4601 (OR = 2.08, P = 0.04, Pc = n.s.) and HLA-B*5401 (OR = 5.44, P = 0.02, Pc = n.s.) were associated with SARS coronavirus infection. Looking at the most severe cases of infection, the severity of SARS was shown to be significantly associated with HLA-B*4601 (P = 0.0008 or Pc = 0.0279).
Sources: Literature
Created: 24 Mar 2020, 12:01 p.m.

Mode of inheritance
MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown

Phenotypes
Susceptibility to Severe Acute Respiratory Syndrome Coronavirus Infection; Susceptibility to SARS-CoV

Publications

Details

Mode of Inheritance
MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown
Sources
Phenotypes
  • Susceptibility to Severe Acute Respiratory Syndrome Coronavirus Infection
  • Susceptibility to SARS-CoV
OMIM
142830
Clinvar variants
Variants in HLA-B
Penetrance
None
Publications
Panels with this gene

History Filter Activity

20 Apr 2020, Gel status: 3

Entity classified by Genomics England curator

Rebecca Foulger (Genomics England curator)

Gene: hla-b has been classified as Green List (High Evidence).

20 Apr 2020, Gel status: 1

Set publications

Rebecca Foulger (Genomics England curator)

Publications for gene: HLA-B were set to 12969506; 15243926; 18186801

7 Apr 2020, Gel status: 1

Set publications

Ivone Leong (Genomics England Curator)

Publications for gene: HLA-B were set to 12969506

24 Mar 2020, Gel status: 1

Created, Added New Source, Set mode of inheritance, Set publications, Set Phenotypes

Ellen McDonagh (Genomics England Curator)

gene: HLA-B was added gene: HLA-B was added to Monogenic viral susceptibility. Sources: Literature Mode of inheritance for gene: HLA-B was set to MONOALLELIC, autosomal or pseudoautosomal, imprinted status unknown Publications for gene: HLA-B were set to 12969506 Phenotypes for gene: HLA-B were set to Susceptibility to Severe Acute Respiratory Syndrome Coronavirus Infection; Susceptibility to SARS-CoV