Authors
Nadja Louw, Prince Makay, Phelelani T Mpangase, Barry Shingwenyana, Zandisiwe Goliath, Thirona Naicker, Laura M Yates, Engela Honey, Gerrye Mubungu, Kris Van Den Bogaert, Helen V Firth, Matthew E Hurles, Prosper Lukusa Tshilobo, Koen Devriendt, Amanda Krause, Nadia Carstens, Aimé Lumaka, Zané Lombard
Published in
European journal of human genetics : EJHG. Jul 09, 2026. Epub Jul 09, 2026.
Abstract
Copy number variants (CNV) contribute significantly to the pathogenic variation associated with developmental disorders. CNV detection is often not included in standard exome sequencing (ES) analysis. Complementary methods such as chromosomal microarray are typically offered in diagnostic laboratories to diagnose pathogenic CNV. In this study, we aimed to develop an effective approach for incorporating CNV detection within our ES analysis process for the Deciphering Developmental Disorders in Africa (DDD-Africa) cohort. We analyzed ES data from 505 probands with a developmental disorder, applying a CNV detection approach that assessed data generated using the tools CANOES and XHMM. When available, parental ES data was used to assess inheritance patterns. We confirmed a diagnosis in 41/505 (8,1%) patients with 43 pathogenic CNV identified in the probands. There were 31 deletions and 12 duplications. Among the 26 probands with parental data, all identified CNV were de novo. The addition of CNV analysis to our ES analysis pipeline resulted in an 8.1% increase in diagnostic yield in the DDD-Africa cohort without additional laboratory cost. This offers a feasible approach which is likely to reduce analytical cost and is suitable for low- and middle-income countries where funding and resources for genomic medicine initiatives are limited.
PMID:
42426152
Bibliographic data and abstract were imported from PubMed on 10 Jul 2026.
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