COVID-19 research

Gene: TREX1

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)

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): TREX1 .PanelApp HGNC gene symbol check: TREX1 . IUIS Disease: TREX1 deficiency, Aicardi-Goutieres syndrome 1 (AGS1) . IUIS Inheritance: AR or AD .T cells: Decreased CD8, normal or decreased CD4 cells, .B cells: N/A, .IUIS Other affected cells: N/A. IUIS Associated features: Classical AGS, SLE, FCL. IUIS Major category: Autoinflammatory Disorders. IUIS Subcategory: Type 1 Interferonopathies

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

Comment on list classification: Changed Amber to Green from external expert review and further publications to support gene-disease association, numerous variants reported in this phenotype.

Created: 27 Jun 2018, 6:50 p.m.

Comment on publications: Added publications to support upgrading of the gene to Green.

Created: 27 Jun 2018, 6:49 p.m.

AGS is not PID, but rather Cerebrospinal fluid (CSF), taken using a "spinal tap," can be tested for increased levels of a specific immune system cell (a lymphocyte), which indicates a condition known as chronic lymphocytosis. These cells are normally only elevated during infection, so that lymphocytosis without evidence of infection can be used as an indicator of AGS, therefore it it thought good to include as this panel includes Autoinflammatory Disorders.

Created: 27 Jun 2018, 6:42 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: 19 Apr 2018, 11:16 a.m.

Original metadata downloaded from ESID Registry. ESID_Gene_original: TREX1, PanelApp HGNC gene symbol check: TREX1, ESID classification: Main_category/ Sub_category/ PID_Diagnosis Diseases of immune dysregulation / Type 1 interferonopathies / Type 1 interferonopathies

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

Original metadata supplied by GRID. GRID Gene Symbol HGNC PanelApp check: TREX1, GRID_Gene_Symbol: TREX1, GRID_Transcript_ENS_Community submitted: ENST00000422277, GRID_Transcript_RefSeq: NM_033629.4, GRID_Transcript_ENS_used_on_Production: ENST00000422277

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