A diagnostic ceiling for exome sequencing in cerebellar ataxia and related neurological disorders. Issue 2 (25th November 2019)

• Record Type: Journal Article
• Authors: Ngo, Kathie J.; Rexach, Jessica E.; Lee, Hane; Petty, Lauren E.; Perlman, Susan; Valera, Juliana M.; Deignan, Joshua L.; Mao, Yuanming; Aker, Mamdouh; Posey, Jennifer E.; Jhangiani, Shalini N.; Coban‐Akdemir, Zeynep H.; Boerwinkle, Eric; Muzny, Donna; Nelson, Alexandra B.; Hassin‐Baer, Sharon; Poke, Gemma; Neas, Katherine; Geschwind, Michael D.; Grody, Wayne W.; Gibbs, Richard; Geschwind, Daniel H.; Lupski, James R.; Below, Jennifer E.; Nelson, Stanley F.; Fogel, Brent L.
• Is Part Of: Human mutation. Volume 41:Issue 2(2020)
• Page Start: 487
• Page End: 501
• Publication Date: 2019-11-25
• Subjects: ataxia -- cerebellar ataxia -- cerebellum -- diagnostic testing -- exome -- gait disorders -- genetics -- genomics -- neurogenetics -- spastic paraparesis -- spastic paraplegia -- spinocerebellar ataxia; Human chromosome abnormalities -- Periodicals; Mutation (Biology) -- Periodicals; 616.04205
• DOI: 10.1002/humu.23946
• Languages: English
• ISSNs: 1059-7794

Abstract

Abstract: Genetic ataxias are associated with mutations in hundreds of genes with high phenotypic overlap complicating the clinical diagnosis. Whole‐exome sequencing (WES) has increased the overall diagnostic rate considerably. However, the upper limit of this method remains ill‐defined, hindering efforts to address the remaining diagnostic gap. To further assess the role of rare coding variation in ataxic disorders, we reanalyzed our previously published exome cohort of 76 predominantly adult and sporadic‐onset patients, expanded the total number of cases to 260, and introduced analyses for copy number variation and repeat expansion in a representative subset. For new cases ( n = 184), our resulting clinically relevant detection rate remained stable at 47% with 24% classified as pathogenic. Reanalysis of the previously sequenced 76 patients modestly improved the pathogenic rate by 7%. For the combined cohort ( n = 260), the total observed clinical detection rate was 52% with 25% classified as pathogenic. Published studies of similar neurological phenotypes report comparable rates. This consistency across multiple cohorts suggests that, despite continued technical and analytical advancements, an approximately 50% diagnostic rate marks a relative ceiling for current WES‐based methods and a more comprehensive genome‐wide assessment is needed to identify the missing causative genetic etiologies for cerebellar ataxia and related neurodegenerative diseases. Abstract : Genetic ataxias are associated with mutations in hundreds of genes with high phenotypic overlap complicating the clinical diagnosis. To assess rare coding variation in ataxic disorders, we performed whole‐exome sequencing of patients ( n = 260) including analysis for copy number variation and repeat expansion in a representative subset. We suggest that, despite continued technical and analytical advancements, an approximately 50% diagnostic rate marks a relative ceiling for current WES‐based methods and a more comprehensive genome‐wide assessment is needed to further improve diagnosis.