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| Incidentalome v0.316 | LGALSL |
Sangavi Sivagnanasundram gene: LGALSL was added gene: LGALSL was added to Incidentalome. Sources: ClinGen Mode of inheritance for gene: LGALSL was set to Unknown Publications for gene: LGALSL were set to 30940688 Phenotypes for gene: LGALSL were set to Amyotrophic lateral sclerosis MONDO:0004976 Review for gene: LGALSL was set to AMBER Added comment: Classified as LIMITED by ClinGen ALS spectrum disorder GCEP on 14/02/2023 -https://search.clinicalgenome.org/CCID:005279. Significant enrichment in a cohort of 3,239 ALS cases compared to 11,808 controls - OR = 14.63; P = 2.29e-6. Sources: ClinGen |
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| Incidentalome v0.316 | TAF15 |
Sangavi Sivagnanasundram gene: TAF15 was added gene: TAF15 was added to Incidentalome. Sources: ClinGen Mode of inheritance for gene: TAF15 was set to MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted Publications for gene: TAF15 were set to 28889094; 21438137; 22065782; 27810362; 28889094 Phenotypes for gene: TAF15 were set to amyotrophic lateral sclerosis MONDO:0004976; frontotemporal dementia MONDO:0017276 Review for gene: TAF15 was set to AMBER Added comment: Classified as LIMITED by ClinGen ALS GCEP on 11/03/2021 - https://search.clinicalgenome.org/CCID:006311 Reported in individuals with sporadic and familial ALS and in individuals with behavourial FTD. The variants reported in the publications were reported in gnomAD non-neuro cohort including elderly individuals, therefore leading to ClinGen's limited classification. Sources: ClinGen |
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| Incidentalome v0.316 | GLT8D1 |
Sangavi Sivagnanasundram gene: GLT8D1 was added gene: GLT8D1 was added to Incidentalome. Sources: ClinGen Mode of inheritance for gene: GLT8D1 was set to MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted Publications for gene: GLT8D1 were set to 30811981; 35525134; 34746377; 33714647; 31653410; 35873773; 33581933 Phenotypes for gene: GLT8D1 were set to amyotrophic lateral sclerosis MONDO:0004976 Review for gene: GLT8D1 was set to AMBER Added comment: Classified as LIMITED by ClinGen ALS GCEP on 14/01/2025 - https://search.clinicalgenome.org/CCID:004967 Variants have been reported in 22 probands however the variants identified had a high population frequency which led to ClinGen's limited classification Sources: ClinGen |
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| Incidentalome v0.316 | HTT_HD_CAG | Bryony Thompson HD was changed to HTT_HD_CAG | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.92 | MBD4 | Alison Yeung Publications for gene: MBD4 were set to https://www.biorxiv.org/content/10.1101/2021.04.27.441137v1.full.pdf; 35460607 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.92 | MBD4 | Alison Yeung Publications for gene: MBD4 were set to https://www.biorxiv.org/content/10.1101/2021.04.27.441137v1.full.pdf | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.69 | HTT | Bryony Thompson Classified gene: HTT as No list | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.69 | HTT | Bryony Thompson Added comment: Comment on list classification: Included on the panel as an STR under HD | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.69 | HTT | Bryony Thompson Gene: htt has been removed from the panel. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.66 | MBD4 |
Zornitza Stark gene: MBD4 was added gene: MBD4 was added to Incidentalome. Sources: Literature Mode of inheritance for gene: MBD4 was set to BIALLELIC, autosomal or pseudoautosomal Publications for gene: MBD4 were set to https://www.biorxiv.org/content/10.1101/2021.04.27.441137v1.full.pdf Phenotypes for gene: MBD4 were set to AML and colorectal polyps; MBD4-associated neoplasia syndrome Review for gene: MBD4 was set to AMBER Added comment: Three individuals reported with bi-allelic LOF and rare combination of AML and adenomatous colorectal polyps. Sources: Literature |
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| Incidentalome v0.65 | HTT | Zornitza Stark Marked gene: HTT as ready | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.65 | HTT | Zornitza Stark Gene: htt has been classified as Green List (High Evidence). | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.65 | HTT | Zornitza Stark Phenotypes for gene: HTT were changed from to Huntington disease, MIM# 143100 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.64 | HTT | Zornitza Stark Publications for gene: HTT were set to | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.63 | HTT | Zornitza Stark Mode of inheritance for gene: HTT was changed from Unknown to MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.62 | HTT | Zornitza Stark Tag STR tag was added to gene: HTT. | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.62 | HTT | Zornitza Stark reviewed gene: HTT: Rating: GREEN; Mode of pathogenicity: None; Publications: ; Phenotypes: Huntington disease, MIM# 143100; Mode of inheritance: MONOALLELIC, autosomal or pseudoautosomal, NOT imprinted | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.62 | HTT |
Eleanor Williams changed review comment from: PMID: 33432339 - Jung et al 2021 - further characterisation of the family previously reported in PMID: 27329733 (Rodan et al 2016) - using WGS they confirm they are the most likely cause of the LOMARS phenotype and clarify their locations as NM_002111.8(HTT): c.8157T>A (p.Phe2719Leu) and NM_002111.8(HTT)c.4469+1G>A (Note there are incorrect Clinvar entries). Functional studies show them each to be a hypomorphic mutation, resulting in severe deficiency of huntingtin in compound heterozygotes. Still only 2 cases reported to date with biallelic LOF variants in HTT associated with the LOMARS phenotype although this study add further weight with some functional data.; to: PMID: 33432339 - Jung et al 2021 - further characterisation of the family previously reported in PMID: 27329733 (Rodan et al 2016) - using WGS they confirm they are the most likely cause of the LOMARS phenotype and clarify their locations as NM_002111.8(HTT): c.8157T>A (p.Phe2719Leu) and NM_002111.8(HTT)c.4469+1G>A (Note there are incorrect Clinvar entries). Functional studies show them each to be a hypomorphic mutation, resulting in severe deficiency of huntingtin in compound heterozygotes. Still only 2 cases reported to date ((PMID: 27329733/33432339 and 26740508) with biallelic LOF variants in HTT associated with the LOMARS phenotype although this study add further weight with some functional data. |
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| Incidentalome v0.62 | HTT | Eleanor Williams reviewed gene: HTT: Rating: AMBER; Mode of pathogenicity: None; Publications: 33432339, 27329733, 26740508; Phenotypes: Lopes-Maciel-Rodan syndrome OMIM:617435; Mode of inheritance: BIALLELIC, autosomal or pseudoautosomal | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Incidentalome v0.0 | HTT |
Zornitza Stark gene: HTT was added gene: HTT was added to Incidentalome_VCGS. Sources: Expert Review Green,Victorian Clinical Genetics Services Mode of inheritance for gene: HTT was set to Unknown |
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