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Article Dans Une Revue Human Mutation Année : 2016

Mini-Exome Coupled to Read-Depth Based Copy Number Variation Analysis in Patients with Inherited Ataxias

Xavier Ayrignac
Sabrina Sacconi
  • Fonction : Auteur
  • PersonId : 867330
Nicolas Pageot
  • Fonction : Auteur
  • PersonId : 903746
Pierre Labauge
Patrick Calvas
  • Fonction : Auteur
  • PersonId : 853869

Résumé

Next-generation sequencing (NGS) has an established diagnostic value for inherited ataxia. However, the need of a rigorous process of analysis and validation remains challenging. Moreover, copy number variations (CNV) or dynamic expansions of repeated sequence are classically considered not adequately detected by exome sequencing technique. We applied a strategy of mini-exome coupled to read-depth based CNV analysis to a series of 33 patients with probable inherited ataxia and onset <50 years. The mini-exome consisted of the capture of 4,813 genes having associated clinical phenotypes. Pathogenic variants were found in 42% and variants of uncertain significance in 24% of the patients. These results are comparable to those from whole exome sequencing and better than previous targeted NGS studies. CNV and dynamic expansions of repeated CAG sequence were identified in three patients. We identified both atypical presentation of known ataxia genes (ATM, NPC1) and mutations in genes very rarely associated with ataxia (ERCC4, HSD17B4). We show that mini-exome bioinformatics data analysis allows the identification of CNV and dynamic expansions of repeated sequence. Our study confirms the diagnostic value of the proposed genetic analysis strategy. We also provide an algorithm for the multidisciplinary process of analysis, interpretation, and validation of NGS data.

Dates et versions

hal-01825917 , version 1 (28-06-2018)

Identifiants

Citer

Cecilia Marelli, Claire Guissart, Cécile Hubsch, Mathilde Renaud, Jean-Philippe Villemin, et al.. Mini-Exome Coupled to Read-Depth Based Copy Number Variation Analysis in Patients with Inherited Ataxias. Human Mutation, 2016, 37 (12), pp.1340 - 1353. ⟨10.1002/humu.23063⟩. ⟨hal-01825917⟩
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