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COVID-19 research

Gene: VPS45

Green List (high evidence)
VPS45 (vacuolar protein sorting 45 homolog)
EnsemblGeneIds (GRCh38): ENSG00000136631
EnsemblGeneIds (GRCh37): ENSG00000136631
OMIM: 610035, Gene2Phenotype
VPS45 is in 4 panels

5 reviews

Kimberly Gilmour (Great Ormond Street Hopsital)

Green List (high evidence)

agree with green gene
Created: 17 Sep 2019, 3:18 p.m. | Last Modified: 17 Sep 2019, 3:18 p.m.
Panel Version: 1.94
Created: 17 Sep 2019, 3:18 p.m.
Last Modified: 17 Sep 2019, 3:18 p.m.
Panel version: Imported from Primary immunodeficiency panel version 1.94

Louise Daugherty (Genomics England Curator)

Green List (high evidence)

Gene rating submitted by Kimberly Gilmour and Austen Worth on behalf of London North GLH for the GMS Immunology specialist test group. As discussed with the GMS Immunology Specialist Test Group during webex call 28th March 2019 and confirmed in follow up email 6th September the Specialist Test Group all agreed there is enough evidence to rate this gene Green.
Created: 17 Sep 2019, 3:18 p.m. | Last Modified: 17 Sep 2019, 3:18 p.m.
Panel Version: 1.94
Gene rating submitted by Tracy Briggs, David Gokhale and Abigal Rousseau on behalf of North West GLH for the GMS Immunology specialist test group. As discussed with the GMS Immunology Specialist Test Group during webex call 28th March 2019 and confirmed in follow up email on 20th June the Specialist Test Group all agreed there is enough evidence to rate this gene Green.
Created: 17 Sep 2019, 3:18 p.m. | Last Modified: 17 Sep 2019, 3:18 p.m.
Panel Version: 1.94
OriginaI Metadata from IUIS classification table (February, 2018) downloaded 20180614. IUIS Genetic defect (original gene symbol in IUIS download): VPS45 .PanelApp HGNC gene symbol check: VPS45 . IUIS Disease: VPS45 deficiency (SCN5) . IUIS Inheritance: AR , .B cells: N/A, .IUIS Other affected cells: N. IUIS Associated features: Extramedullary hematopoiesis, bone marrow fibrosis, nephromegaly . IUIS Major category: Congenital defects of phagocyte number or function. IUIS Subcategory: Congenital Neutropenias
Created: 2 Jul 2018, 10:35 a.m.
Original metadata supplied by GRID. GRID Gene Symbol HGNC PanelApp check: VPS45, GRID_Gene_Symbol: VPS45, GRID_Transcript_ENS_Community submitted: ENST00000369130, GRID_Transcript_RefSeq: NP_009190.2, GRID_Transcript_ENS_used_on_Production: ENST00000369130
Created: 17 Apr 2018, 12:12 p.m.
Created: 17 Apr 2018, 12:12 p.m.

Panel version: Imported from Primary immunodeficiency panel version 1.94

Sophie Hambleton (Newcastle University)

Green List (high evidence)

Mode of inheritance
BIALLELIC, autosomal or pseudoautosomal

Created: 5 Nov 2017, 2:38 a.m.

Panel version: Imported from Primary immunodeficiency panel version Imported from Congenital neutropaenia panel version 0

Tracy Briggs (Manchester Genomic Medicine Centre)

Green List (high evidence)

YES- this is covered on our targeted exome
Created: 17 Sep 2019, 3:18 p.m. | Last Modified: 17 Sep 2019, 3:18 p.m.
Panel Version: 1.94
Created: 5 Nov 2017, 2:38 a.m.

Panel version: Imported from Primary immunodeficiency panel version 1.94

Sarah Leigh (Genomics England Curator)

Comment when marking as ready: Found associated with phenotype in OMIM and not in G2P. Two expert reviewers recommend Green. Found in 1/4 sources. Literature reports two variants in >2 consanguineous Palestinian families
Created: 25 May 2016, 8:26 a.m.
Created: 25 May 2016, 8:26 a.m.

Panel version: Imported from Primary immunodeficiency panel version Imported from Congenital neutropaenia panel version 0.43

Details

Mode of Inheritance
BIALLELIC, autosomal or pseudoautosomal
Sources
  • IUIS Classification February 2018
  • London North GLH
  • NHS GMS
  • GRID V2.0
  • Congenital neutropaenia v1.22
  • North West GLH
  • Victorian Clinical Genetics Services
  • Expert Review Green
  • NHS GMS
  • North West GLH
  • London North GLH
  • IUIS Classification February 2018
  • Victorian Clinical Genetics Services
  • Expert Review Green
  • GRID V2.0
  • Congenital neutropaenia v1.22
Phenotypes
  • VPS45 deficiency (SCN5)
  • Neutropenia, severe congenital 5
  • Congenital defects of phagocyte number or function
  • Extramedullary hematopoiesis, bone marrow fibrosis, nephromegaly
  • Neutropenia, severe congenital, 5, autosomal recessive, 615285
OMIM
610035
Clinvar variants
Variants in VPS45
Penetrance
None
Publications
Panels with this gene

History Filter Activity

1 Apr 2020, Gel status: 3

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

Ellen McDonagh (Genomics England Curator)

gene: VPS45 was added gene: VPS45 was added to Viral susceptibility. Sources: Expert Review Green,Victorian Clinical Genetics Services,North West GLH,Congenital neutropaenia v1.22,GRID V2.0,NHS GMS,London North GLH,IUIS Classification February 2018 Mode of inheritance for gene: VPS45 was set to BIALLELIC, autosomal or pseudoautosomal Publications for gene: VPS45 were set to 23599270; 23738510 Phenotypes for gene: VPS45 were set to VPS45 deficiency (SCN5); Neutropenia, severe congenital 5; Congenital defects of phagocyte number or function; Extramedullary hematopoiesis, bone marrow fibrosis, nephromegaly; Neutropenia, severe congenital, 5, autosomal recessive, 615285