ClinVar Miner

Submissions for variant NM_170707.4(LMNA):c.1201C>T (p.Arg401Cys) (rs61094188)

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Total submissions: 10
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Submitter RCV SCV Clinical significance Condition Last evaluated Review status Method Comment
Biesecker Lab/Clinical Genomics Section,National Institutes of Health RCV000172002 SCV000054719 uncertain significance Emery-Dreifuss muscular dystrophy 2013-06-24 criteria provided, single submitter research
Blueprint Genetics RCV000157295 SCV000207027 uncertain significance Catecholaminergic polymorphic ventricular tachycardia type 1 2014-08-19 no assertion criteria provided clinical testing
Blueprint Genetics RCV000057258 SCV000927502 uncertain significance not provided 2017-12-28 criteria provided, single submitter clinical testing
CHEO Genetics Diagnostic Laboratory,Children's Hospital of Eastern Ontario RCV000769728 SCV000901149 uncertain significance Cardiomyopathy 2015-09-30 criteria provided, single submitter clinical testing
EGL Genetic Diagnostics,Eurofins Clinical Diagnostics RCV000057258 SCV000337619 uncertain significance not provided 2018-05-17 criteria provided, single submitter clinical testing
Epithelial Biology; Institute of Medical Biology, Singapore RCV000057258 SCV000088371 not provided not provided no assertion provided not provided
GeneDx RCV000057258 SCV000234697 uncertain significance not provided 2018-12-20 criteria provided, single submitter clinical testing The R401C variant in the LMNA gene has been reported as a heterozygous variant in an individual with Emery-Dreifuss muscular dystrophy (EDMD), as well as in the individual's unaffected mother and sister (Vytopil et al., 2002). R401C was also observed in trans with another LMNA variant (c.447insC) in a different individual with EDMD and was found to be inherited from a parent without neuromuscular disease (Emerson, et al., 2009). Additionally, the R401C variant was observed in two siblings with dilated cardiomyopathy who may or may not have had additional variants in other cardiomyopathy-related genes (Chami et al., 2014). Nevertheless, this variant is observed in 2 /11,536 alleles (0.02%) from individuals of Latino ancestry in large population cohorts (Lek et al., 2016) and in multiple unaffected individuals referred for genetic testing at GeneDx. The R401C variant is a non-conservative amino acid substitution, which is likely to impact secondary protein structure as these residues differ in polarity, charge, size and/or other properties. This substitution alters a highly conserved position within the Tail region of the LMNA protein. Furthermore, in silico analysis predicts this variant is probably damaging to the protein structure/function.
Invitae RCV000528639 SCV000657795 uncertain significance Charcot-Marie-Tooth disease, type 2 2018-11-19 criteria provided, single submitter clinical testing This sequence change replaces arginine with cysteine at codon 401 of the LMNA protein (p.Arg401Cys). The arginine residue is highly conserved and there is a large physicochemical difference between arginine and cysteine. This variant is present in population databases (rs61094188, ExAC 0.02%). This variant has been reported in an individual affected with muscular dystrophy (PMID: 12376891), as well as several related individuals with dilated cardiomyopathy (PMID: 25448463). However, in the individual with muscular dystrophy, this variant was also observed in their unaffected sister and mother so the clinical significance of this observation is uncertain. ClinVar contains an entry for this variant (Variation ID: 48035). Experimental studies have shown that this missense has varying effects on the binding of known lamin-A interacting proteins (PMID: 14597414, 23977161, 24623722, 28531892). In summary, the available evidence is currently insufficient to determine the role of this variant in disease. Therefore, it has been classified as a Variant of Uncertain Significance.
Laboratory for Molecular Medicine,Partners HealthCare Personalized Medicine RCV000041313 SCV000065005 uncertain significance not specified 2017-05-23 criteria provided, single submitter clinical testing The p.Arg401Cys variant in LMNA has been reported in 1 individual with Emery Dre ifuss muscular dystrophy who carried a second LMNA variant (p.Thr150fs), which w as also present in the father who suffered sudden cardiac death. The p.Arg401Cys variant was also identified in the reportedly unaffected mother and sister (Han isch 2002, Vytopil 2002, Muchir 2004, Emerson 2009). This variant was also ident ified in 2 individuals with DCM (one with neonatal onset), segregated with disea se in 1 affected relative (Chami 2014, LMM data) and has also been reported in C linVar (Variation ID 48035). It has been identified in 6/34400 of Latino chromos omes and 11/126264 of European chromosomes by the Genome Aggregation Consortium (gnomAD, http://gnomad.broadinstitute.org; dbSNP rs61094188). Computational pred iction tools and conservation analysis do not provide strong support for or agai nst an impact to the protein. In summary, the clinical significance of the p.Arg 401Cys variant is uncertain.
Molecular Diagnostic Laboratory for Inherited Cardiovascular Disease,Montreal Heart Institute RCV000627127 SCV000747935 likely pathogenic Familial dilated cardiomyopathy 2017-02-17 criteria provided, single submitter clinical testing

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