Total submissions: 5
| Submitter | RCV | SCV | Clinical significance | Condition | Last evaluated | Review status | Method | Comment |
|---|---|---|---|---|---|---|---|---|
| Illumina Laboratory Services, |
RCV000354484 | SCV000384684 | uncertain significance | Wilson disease | 2018-01-12 | criteria provided, single submitter | clinical testing | This variant was observed in the ICSL laboratory as part of a predisposition screen in an ostensibly healthy population. It had not been previously curated by ICSL or reported in the Human Gene Mutation Database (HGMD: prior to June 1st, 2018), and was therefore a candidate for classification through an automated scoring system. Utilizing variant allele frequency, disease prevalence and penetrance estimates, and inheritance mode, an automated score was calculated to assess if this variant is too frequent to cause the disease. Based on the score, this variant could not be ruled out of causing disease and therefore its association with disease required further investigation. A literature search was performed for the gene, cDNA change, and amino acid change (if applicable). No publications were found based on this search. This variant was therefore classified as a variant of unknown significance for this disease. |
| Labcorp Genetics |
RCV000354484 | SCV003780762 | pathogenic | Wilson disease | 2024-07-22 | criteria provided, single submitter | clinical testing | This sequence change replaces arginine, which is basic and polar, with tryptophan, which is neutral and slightly polar, at codon 226 of the ATP7B protein (p.Arg226Trp). This variant is present in population databases (rs749626601, gnomAD 0.03%). This missense change has been observed in individual(s) with Wilson disease (PMID: 34400371). In at least one individual the data is consistent with being in trans (on the opposite chromosome) from a pathogenic variant. ClinVar contains an entry for this variant (Variation ID: 312397). Advanced modeling of protein sequence and biophysical properties (such as structural, functional, and spatial information, amino acid conservation, physicochemical variation, residue mobility, and thermodynamic stability) has been performed at Invitae for this missense variant, however the output from this modeling did not meet the statistical confidence thresholds required to predict the impact of this variant on ATP7B protein function. For these reasons, this variant has been classified as Pathogenic. |
| Baylor Genetics | RCV000354484 | SCV004216260 | likely pathogenic | Wilson disease | 2024-03-26 | criteria provided, single submitter | clinical testing | |
| All of Us Research Program, |
RCV000354484 | SCV005427975 | uncertain significance | Wilson disease | 2024-03-24 | criteria provided, single submitter | clinical testing | This missense variant replaces arginine with tryptophan at codon 226 of the ATP7B protein. This variant is located in the extracellular metal binding domain 3 (a.a. 258-327) of the ATP protein. Computational prediction suggests that this variant may not impact protein structure and function. To our knowledge, functional studies have not been reported for this variant. This variant has been observed in two children affected with Wilson disease in compound heterozygous state with another pathogenic variant in the same gene, as well as in one homozygous affected child (PMID: 34400371). This variant has been identified in 10/249438 chromosomes in the general population by the Genome Aggregation Database (gnomAD). Although there is a suspicion for a pathogenic role, the available evidence is insufficient to determine the role of this variant in disease conclusively. Therefore, this variant is classified as a Variant of Uncertain Significance. |
| Fulgent Genetics, |
RCV000354484 | SCV005636284 | likely pathogenic | Wilson disease | 2023-12-26 | criteria provided, single submitter | clinical testing |