COVID-19 research

Gene: C1R

Green List (high evidence)

IUIS: Inheritance - AR (Causes C1r deficiency. Absent CH50 hemolytic activity, defective activation of the classical pathway. Associated with SLE, infections with encapsulated organisms, Ehlers-Danlos phenotype), AD GOF (Causes C1r Periodontal Ehlers-Danlos. Normal CH50. Associated with Hyperpigmentation, skin fragility)

Created: 15 Apr 2020, 12:09 p.m. | Last Modified: 15 Apr 2020, 12:09 p.m.

Panel Version: 0.103

Mode of inheritance
BOTH monoallelic and biallelic, autosomal or pseudoautosomal

Publications

• 32086639
• 32048120

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

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

Green List (high evidence)

Autosomal dominant mutations in same gene cause Periodontal Ehlers Danlos syndrome, see PMID 27745832

Created: 19 Jun 2018, 6:09 a.m.

Mode of inheritance
BIALLELIC, autosomal or pseudoautosomal

Phenotypes
SLE; pyogenic infections

Publications

• 21784777
• 28544690

I don't know

Added publication referenced by IUIS december 2019 update

Created: 28 Feb 2020, 8:49 p.m. | Last Modified: 28 Feb 2020, 8:49 p.m.

Panel Version: 2.36

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): C1R .PanelApp HGNC gene symbol check: C1R . IUIS Disease: C1r deficiency . IUIS Inheritance: AR .T cells: Increased DN T cells , .B cells: N/A, .IUIS Other affected cells: N/A. IUIS Associated features: SLE, infections with encapsulated organisms, Ehlers Danlos phenotype . IUIS Major category: Complement Deficiencies. IUIS Subcategory: N/A

Created: 2 Jul 2018, 10:35 a.m.

Comment on list classification: Changed from Amber to Green due to expert review. It is noted that SLE; pyogenic infections are biallelic and that monoallelic forms result different phenotype, and this is reflected in the Ehlers-Danlos syndromes panel

Created: 20 Jun 2018, 3:26 p.m.

Comment on phenotypes: added phenotypes from external review

Created: 20 Jun 2018, 3:25 p.m.

Comment on publications: added publications suggested from external expert review to support upgrading of the gene to Green

Created: 20 Jun 2018, 3:24 p.m.

Keep Amber for now, more suitable for autoinflammatory spectrum panel? Seek external clinical review.

Created: 15 Jun 2018, 3:24 p.m.

past onto clinical team for further review, early complement deficiency type does not result in a significant increased susceptibility to infection rather, patients develop autoimmune complications, particularly systemic lupus erythematosus (SLE)- associated with EDS phenotype and in particularly is associated to general Immunodeficiency due to a classical component pathway complement deficiency - however I am not sure if there are enough cases and specific variants? Seems to be more with risk and susceptibility than pertinence of a PID phenotype eg: there seem to be a number of other associated phenotypes

Created: 15 Jun 2018, 1:36 p.m.

The incidence of SLE is 90% for C1q, 75% for C4, and 55% for C1r and C1s deficiency. This increased risk may be explained by that fact that C1q is important for the clearance of immune complexes and apoptotic cells.

Created: 15 Jun 2018, 1:23 p.m.

added early onset tag

Created: 15 Jun 2018, 1:02 p.m.

Comment on publications: PMID:27745832 Kapferer-Seebacher et al. (2016) studies Ehlers-Danlos syndrome periodontal type 2 patients with mutations in the C1R or C1S genes (77 and 16 patients, respectively) . In addition to the predominate phenotypes associated to periodontal type EDS, about half of patients exhibited atrophic scars or wide scarring and/or prominent vasculature. Other variable features included recurrent infections, joint pain, flat feet, marfanoid facial features, scoliosis, osteoarthritis, and hernias. A minority of patients had joint dislocations; aneurysms occurred in 4 families, and autoimmune disorders occurred in 1 family. PMID: 28544690 (2017) studied a large consanguineous family from Turkey findings revealed a novel high-penetrance mutation in C1R as the cause of monogenic SLE. Disease expressivity in this family appears to be influenced by additional common and rare genetic variants.

Created: 15 Jun 2018, 1 p.m.

This gene was absent from the original PanelApp PID panel dataset (review April 2018). However it was listed in external expert immunodeficiency diagnostic gene list(s) GOSH or GRID. In this combined PID panel, this gene has been rated as AMBER and needs further curational review to assess pertinence prior to v1.

Created: 20 Apr 2018, 12:25 p.m.

Original metadata downloaded from ESID Registry. ESID_Gene_original: C1r, PanelApp HGNC gene symbol check: C1R, ESID classification: Main_category/ Sub_category/ PID_Diagnosis Complement deficiencies / Complement deficiency / Complement component 1 deficiency

Created: 17 Apr 2018, 12:29 p.m.

Original metadata supplied by GRID. GRID Gene Symbol HGNC PanelApp check: C1R, GRID_Gene_Symbol: C1R, GRID_Transcript_ENS_Community submitted: ENST00000542285, GRID_Transcript_RefSeq: NM_001733, GRID_Transcript_ENS_used_on_Production: ENST00000542285

Created: 17 Apr 2018, 12:12 p.m.

Publications

• 27745832