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| COVID-19 research v1.26 | HLA-C |
Sarah Leigh changed review comment from: HLA-C was identified through an OMIM search for potential viral susceptibility genes. Initial triage by Illumina (Alison Coffey and team) was given a Tier 3 grouping (experimental evidence and association data consistent with viral susceptibility); to: HLA-C was identified through an OMIM search for potential viral susceptibility genes. Initial triage by Illumina (Alison Coffey and team) was given a Tier 3 grouping (experimental evidence and association data consistent with viral susceptibility). Illumina review: From OMIM: PMID: 11386265 - Gao et al. (2001) concluded that the previously observed association of HLA-Cw*04 with progression to AIDS was due to its linkage disequilibrium with HLA-B*35-Px alleles. PMID:17641165 - Fellay et al. (2007) identified polymorphisms that explain nearly 15% of the variation among individuals in viral load during the asymptomatic set-point period of infection. One of these lies within an endogenous retroviral element and is associated with major histocompatibility allele HLA-B*5701 (142830.0003), whereas a second is located near the HLA-C gene. PMID:19933563 - Thomas et al. (2009) - Genotyped a previously identified varinat 35 kb upstream of the HLA-C gene in 1,698 patients of European ancestry with HIV. Tested cell surface expression of HLA-C in normal donors using an HLA-C-specific antibody. Found that the -35C allele is a proxy for high HLA-C cell surface expression, and that individuals with high surface expression better control viremia and progress more slowly to AIDS. Thomas et al. (2009) concluded that high HLA-C expression results in more effective control of HIV-1, possibly through better antigen presentation to cytotoxic T lymphocytes. PMID 21051598: International HIV Controllers Study performed a GWAS in a multiethnic cohort of HIV-1 controllers and progressors, and analyzed the effects of individual amino acids within the classical human leukocyte antigen (HLA) proteins and demonstrated HLA-C expression affects response to HIV - higher HLA-C expression is associated with better control of HIV-1. |
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| COVID-19 research v0.171 | HLA-B | Sophie Hambleton reviewed gene: HLA-B: Rating: GREEN; Mode of pathogenicity: Other; Publications: ; Phenotypes: ; Mode of inheritance: None | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.120 | HLA-B | Rebecca Foulger changed review comment from: 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.; to: 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. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.120 | HLA-B | Rebecca Foulger Classified gene: HLA-B as Green List (high evidence) | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.120 | HLA-B | Rebecca Foulger Added comment: 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. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.120 | HLA-B | Rebecca Foulger Gene: hla-b has been classified as Green List (High Evidence). | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.119 | HLA-B | Rebecca Foulger commented on gene: HLA-B: 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? | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.119 | HLA-B | Rebecca Foulger commented on gene: HLA-B: 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). | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.119 | HLA-B | Rebecca Foulger commented on gene: HLA-B: 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. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.119 | HLA-B | Rebecca Foulger Publications for gene: HLA-B were set to 12969506; 15243926; 18186801 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.118 | HLA-B | Rebecca Foulger commented on gene: HLA-B | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.59 | HLA-B | Ivone Leong Publications for gene: HLA-B were set to 12969506 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.48 | HLA-B | Ivone Leong reviewed gene: HLA-B: Rating: ; Mode of pathogenicity: None; Publications: 15243926, 18186801; Phenotypes: ; Mode of inheritance: None | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| COVID-19 research v0.15 | HLA-B |
Ellen McDonagh 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 Added comment: 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 |
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