Role of reverse phenotyping in interpretation of next generation sequencing data and a review of INPP5E related disorders. (March 2016)

• Record Type: Journal Article
• Authors: de Goede, Christian; Yue, Wyatt W.; Yan, Guanhua; Ariyaratnam, Shyamala; Chandler, Kate E.; Downes, Laura; Khan, Nasaim; Mohan, Meyyammai; Lowe, Martin; Banka, Siddharth
• Is Part Of: European journal of paediatric neurology. Volume 20:Number 2(2016:Mar.)
• Page Start: 286
• Page End: 295
• Publication Date: 2016-03
• Subjects: Reverse phenotyping -- Next generation sequencing -- INPP5E -- Joubert syndrome -- MORM syndrome -- RABL6 -- C9orf86; Pediatric neurology -- Periodicals; Nervous System Diseases -- Periodicals; Child -- Periodicals; Infant -- Periodicals; Neurologie pédiatrique -- Périodiques; Pediatric neurology; Electronic journals; Periodicals; Electronic journals; 618.928
• DOI: 10.1016/j.ejpn.2015.11.012
• Languages: English
• ISSNs: 1090-3798

Abstract

Abstract: Introduction: Next Generation Sequencing (NGS) is a useful tool in diagnosis of rare disorders but the interpretation of data can be challenging in clinical settings. We present results of extended studies on a family of multiple members with global developmental delay and learning disability, where another research group postulated the underlying cause to be a homozygous RABL6 missense variant. Methods and results: Using data from the Exome Variant Server, we show that missense RABL6 variants are unlikely to cause early onset rare developmental disorder. Protein structural analysis, cellular functional studies and reverse phenotyping proved that the condition in this family is due to a homozygous INPP5E mutation. An in-depth review of mutational and phenotypic spectrum associated with INPP5E demonstrated that mutations in this gene lead to a range of cilliopathy-phenotypes. Discussion: We use this study as an example to demonstrate the importance of careful clinical evaluation of multiple family members, reverse phenotyping, considering the unknown phenotypic variability of rare diseases, utilizing publically available genomic databases and conducting appropriate bioinformatics and functional studies while interpreting results from NGS in uncertain cases. We emphasize that interpretation of NGS data is an iterative process and its dynamic nature should be explained to patients and families. Our study shows that developmental delay, intellectual disability, hypotonia and ocular motor apraxia are common in INPP5E -related disorders and considerable intra-familial phenotypic variability is possible. We have compiled the INPP5E mutational spectrum and provided novel insights into their molecular mechanisms. Highlights: Careful clinical evaluation and reverse phenotyping is key to correct interpretation of NGS data. Review of published data assist in interpreting complex NGS results in clinic. Functional studies assist in interpreting complex NGS results in clinic. Patients and families should be explained that interpretation of NGS data may be iterative. INPP5E mutations lead to a range of cilliopathy-phenotypes.