Primary immunodeficiency or monogenic inflammatory bowel disease
Gene: TRACComment on list classification: Changed rating of gene from Red to Green. This gene was rated as Green in v2.208 and incorrectly automatically demoted to Red in v2.209. This was due to a defect in the automatic PanelApp uploading tool when a set of publications was added to the panel with the source ‘Other’, and under certain conditions associated to previous sources listed, resulted in the rating of the gene being automatically changed when it should not have been.Created: 14 Oct 2020, 4:43 p.m. | Last Modified: 14 Oct 2020, 4:43 p.m.
Panel Version: 2.328
The following PubMed IDs were added to entity TRAC: 21206088;3464003. These publications have been associated with OMIM phenotype MIM#615387, which is listed for this entity, by the immunodeficiencies subgroup of the Human Phenotype Ontology Immune Mediated Disorders Consortium (https://hpo-immune-mediated-disorders.groups.io/g/update) in August 2020.Created: 13 Oct 2020, 9:36 a.m. | Last Modified: 13 Oct 2020, 9:36 a.m.
Panel Version: 2.208
Publications
agree with green geneCreated: 17 Sep 2019, 3:18 p.m. | Last Modified: 17 Sep 2019, 3:18 p.m.
Panel Version: 1.94
YES- this is covered on our targeted exomeCreated: 17 Sep 2019, 3:18 p.m. | Last Modified: 17 Sep 2019, 3:18 p.m.
Panel Version: 1.94
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
added founder-effect tagCreated: 2 Jul 2018, 1:14 p.m.
Personal correspondence has revealed a third case awaiting confirmation, however the immunophenotype is very distinctive and fits with the genetic lesion.Created: 2 Jul 2018, 1:09 p.m.
OriginaI Metadata from IUIS classification table (February, 2018) downloaded 20180614. IUIS Genetic defect (original gene symbol in IUIS download): TRAC .PanelApp HGNC gene symbol check: TRAC . IUIS Disease: TCR_ deficiency . IUIS Inheritance: AR .T cells: Not reported, .B cells: Normal, .IUIS Other affected cells: N/A. IUIS Associated features: Recurrent viral, bacterial, fungal infections, immune dysregulation and autoimmunity, diarrhea. IUIS Major category: Immunodeficiencies affecting cellular and humoral immunity. IUIS Subcategory: Combined Immunodeficiencies Generally Less Profound than Severe Combined ImmunodeficiencyCreated: 2 Jul 2018, 10:35 a.m.
PMID: 21206088 Two unrelated Pakistani families reported to suffer from selective alpha/beta T-cell deficiency due to a homozygous mutation of the TCR alpha constant (TRAC) gene. Single variaint reported NG_001332.2:g.1074699G>ACreated: 27 Jun 2018, 6:17 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, 11:30 a.m.
Original metadata downloaded from ESID Registry. ESID_Gene_original: TRAC, PanelApp HGNC gene symbol check: TRAC, ESID classification: Main_category/ Sub_category/ PID_Diagnosis Combined immunodeficiencies / Combined immunodeficiency (CID) / Combined immunodeficiencyCreated: 17 Apr 2018, 12:29 p.m.
Original metadata supplied by GRID. GRID Gene Symbol HGNC PanelApp check: TRAC, GRID_Gene_Symbol: TRAC, GRID_Transcript_ENS_Community submitted: ENST00000478163, GRID_Transcript_RefSeq: null, GRID_Transcript_ENS_used_on_Production: ENST00000478163Created: 17 Apr 2018, 12:12 p.m.
Gene: trac has been classified as Green List (High Evidence).
Source Other was added to TRAC. Rating Changed from Green List (high evidence) to Red List (low evidence)
Source NHS GMS was added to TRAC.
Source North West GLH was added to TRAC.
Source London North GLH was added to TRAC.
2018-07-12 Louise Daugherty (Genomics England Curator) promoted panel to v1.0. Reviews were assessed, and panel was revised according to expert reviews and further in-house curation based on PanelApp guidelines. Previous panels (A- or hypo-gammaglobulinaemia, Congenital neutropaenia, Agranulocytosis, Combined B and T cell defect, Inherited complement deficiency and SCID panels) that were merged with this panel, were checked again for any changes/new reviews prior to versioning of this panel, these merged panels are now retired/made internal.
Gene: trac has been classified as Green List (High Evidence).
Gene: trac has been classified as Green List (High Evidence).
Gene: trac has been classified as Amber List (Moderate Evidence).
Phenotypes for gene TRAC were set to Immunodeficiency 7, TCR-alpha/beta deficient, 615387, Combined immunodeficiency, Recurrent viral, bacterial, fungal infections, immune dysregulation and autoimmunity, diarrhea, Immunodeficiencies affecting cellular and humoral immunity
Gene: trac has been classified as Green List (High Evidence).
Gene: trac has been classified as Green List (High Evidence).
Phenotypes for gene: TRAC were set to Immunodeficiency 7, TCR-alpha/beta deficient, 615387; Combined immunodeficiency
Publications for gene: TRAC were set to 21206088; 3464003
IUIS Classification February 2018 was added to TRAC. Panel: Primary immunodeficiency disorders
This gene has been classified as Amber List (Moderate Evidence).
ESID Registry 20171117 was added to TRAC. Panel: Primary immunodeficiency disorders Phenotypes for gene TRAC were set to Immunodeficiency 7, TCR-alpha/beta deficient, Combined immunodeficiency
Phenotypes for gene TRAC were set to Immunodeficiency 7, TCR-alpha/beta deficient
TRAC was added to Primary immunodeficiency disorders panel. Sources: GRID V2.0
TRAC was created by Louise Daugherty