Dataset Information

Genome sequencing and comprehensive rare-variant analysis of 465 families with neurodevelopmental disorders.

ABSTRACT: Despite significant progress in unraveling the genetic causes of neurodevelopmental disorders (NDDs), a substantial proportion of individuals with NDDs remain without a genetic diagnosis after microarray and/or exome sequencing. Here, we aimed to assess the power of short-read genome sequencing (GS), complemented with long-read GS, to identify causal variants in participants with NDD from the National Institute for Health and Care Research (NIHR) BioResource project. Short-read GS was conducted on 692 individuals (489 affected and 203 unaffected relatives) from 465 families. Additionally, long-read GS was performed on five affected individuals who had structural variants (SVs) in technically challenging regions, had complex SVs, or required distal variant phasing. Causal variants were identified in 36% of affected individuals (177/489), and a further 23% (112/489) had a variant of uncertain significance after multiple rounds of re-analysis. Among all reported variants, 88% (333/380) were coding nuclear SNVs or insertions and deletions (indels), and the remainder were SVs, non-coding variants, and mitochondrial variants. Furthermore, long-read GS facilitated the resolution of challenging SVs and invalidated variants of difficult interpretation from short-read GS. This study demonstrates the value of short-read GS, complemented with long-read GS, in investigating the genetic causes of NDDs. GS provides a comprehensive and unbiased method of identifying all types of variants throughout the nuclear and mitochondrial genomes in individuals with NDD.

SUBMITTER: Sanchis-Juan A

PROVIDER: S-EPMC10432178 | biostudies-literature | 2023 Aug

REPOSITORIES: biostudies-literature

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Genome sequencing and comprehensive rare-variant analysis of 465 families with neurodevelopmental disorders.

Sanchis-Juan Alba A Megy Karyn K Stephens Jonathan J Armirola Ricaurte Camila C Dewhurst Eleanor E Low Kayyi K French Courtney E CE Grozeva Detelina D Stirrups Kathleen K Erwood Marie M McTague Amy A Penkett Christopher J CJ Shamardina Olga O Tuna Salih S Daugherty Louise C LC Gleadall Nicholas N Duarte Sofia T ST Hedrera-Fernández Antonio A Vogt Julie J Ambegaonkar Gautam G Chitre Manali M Josifova Dragana D Kurian Manju A MA Parker Alasdair A Rankin Julia J Reid Evan E Wakeling Emma E Wassmer Evangeline E Woods C Geoffrey CG Raymond F Lucy FL Carss Keren J KJ

American journal of human genetics 20230801 8

Despite significant progress in unraveling the genetic causes of neurodevelopmental disorders (NDDs), a substantial proportion of individuals with NDDs remain without a genetic diagnosis after microarray and/or exome sequencing. Here, we aimed to assess the power of short-read genome sequencing (GS), complemented with long-read GS, to identify causal variants in participants with NDD from the National Institute for Health and Care Research (NIHR) BioResource project. Short-read GS was conducted ...[more]

PMID: 37541188

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Dataset Information

Genome sequencing and comprehensive rare-variant analysis of 465 families with neurodevelopmental disorders.

Publications

Genome sequencing and comprehensive rare-variant analysis of 465 families with neurodevelopmental disorders.

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