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December 8, 2025npj Genomic Medicine4 citationsOpen Access

Clinical utility of genome sequencing in rare diseases: lessons from a single-center study of 1,452 Korean families

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SLSeungbok LeeGSGo Hun SeoSKSoo Yeon Kim

Key Points

  • Molecular diagnosis achieved in 46.2% of families, influencing management in 18.5% of cases.
  • Genome sequencing showed higher diagnostic yield in family testing compared to singleton testing (48.5% vs. 41.5%).
  • Neurodevelopmental disorders had the highest diagnostic yields among 16 clinical subgroups assessed.
  • The findings highlight the clinical utility of genome sequencing as a first-tier test for rare genetic disorders.

Abstract

Genome sequencing (GS) was applied to 3317 individuals from 1452 Korean families with suspected rare genetic disorders to assess diagnostic yield and clinical utility. Patients were categorized into 16 clinical subgroups with curated phenotypes, and variant interpretation was refined by post-analytic phenotype matching. A molecular diagnosis was achieved in 46.2% of families, influencing clinical management in 18.5% of diagnosed cases. Family-based GS had a higher yield than singleton testing (48.5% vs. 41.5%). Neuromuscular and neurodevelopmental disorders showed the highest yields. GS-specific variant types, including deep intronic, noncoding, complex structural variants, and tandem repeat expansions, accounted for 14.6% of diagnoses. Secondary findings were identified in 4.3% of individuals. Novel disease-associated genes such as RYBP, DNAJA3, CAMK2D, and small nuclear RNA genes were also reported. These results highlight the diagnostic power of GS and support its use as a first-tier test, especially in underrepresented populations.

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Cite This Study

Lee et al. (2025) studied this question.

synapsesocial.com/papers/694020e22d562116f28fa97dhttps://doi.org/10.1038/s41525-025-00538-9
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