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BMC Genomics

Open Access

Application of array comparative genomic hybridization (array- CGH) for detection of chromosomal imbalances in children with developmental delay/congenital malformations in Saudi Arabia

  • Ibtessam Ramzi Hussein1Email author,
  • Adeel G. Chaudhary2,
  • Randa Bassiouni3,
  • Maha AlQuaiti1,
  • Samira Sogaty4 and
  • Mohammed Al-Qahtani2
BMC Genomics201415(Suppl 2):P52

Published: 2 April 2014


Intellectual DisabilityDevelopmental DelayChromosomal AberrationComparative Genomic HybridizationCongenital Malformation


Microarray–based Comparative Genomic Hybridization (a-CGH) has enabled wide investigation of the genome at high resolution and has been implemented in different centers as a clinical diagnostic tool. Chromosomal imbalances are implicated in the etiology of Developmental Delay (DD)/Intellectual Disability (ID)/Congenital Malformations. However, most of these cases may not be diagnosed by conventional cytogenetic techniques. We aimed to establish a-CGH technique and assess its potential as a diagnostic tool for chromosomal imbalances and to detect known and novel chromosomal aberrations in patients with DD/ congenital malformations.

Materials and methods

A total of 75 patients presented with DD/ congenital malformations with or without ID were referred to the CEGMR for cytogenetic analyses. We used both conventional cytogenetic G-banding and Fluorescent in-situ hybridization techniques (FISH), besides we applied (array-CGH) high resolution Agilent scanner with 1X244 K array format in 25 samples and 2X400 K format in 50 samples.


Chromosomal aberrations were detected in 10/72 (13.8%) patients by G-banding technique and 4/50 (8%) by FISH technique, however, 17/72 (23.6%) were diagnosed by a-CGH technique. All micro-deletion syndromes and partial duplications were detected by the chromosomal microarray technique: (Del 15 (q11.2); Del 15 (q13-14); Del 22 (q11.2); Del 7 (q11.23); Del 18 (q21 q23); Del 1 (p36); del 21q21-q23, del 13q21-q31.3, del 11q24.2-q25, and duplications in: dup 18p (p11.21); dup 15 (q11 q23); dup 18 (q23). However, one patient with unbalanced translocation could not be detected by this technique. The increase in the CNVs number detected by a-CGH needs further investigation for contribution to phenotypes.


Our results indicate the strength of high resolution genomic arrays in diagnosing cases of unknown etiology and in detection of contiguous genomic alterations in the wide spectrum of cases with DD/ID/congenital malformations.

Authors’ Affiliations

Centre of Excellence in Genomic Medicine Research, King Abdulaziz University, Jeddah, KSA
Faculty of Medical Sciences, King Abdulaziz University, Jeddah, KSA
Pediatrics Dept, Ministry of Health, Al-Taif, KSA
Maternity & Child Hospital, Jeddah, Jeddah, KSA


  1. Liang J, Shimojima K, Yamamoto T: Application of array-based comparative genome hybridization in children with developmental delay or mental retardation. Pediatr. Neonatal. 2008, 49 (6): 213-217.View ArticleGoogle Scholar
  2. Hochstenbach R, et al: Array analysis and karyotyping: Workflow consequences based on a retrospective study of 36,325 patients with idiopathic developmental delay in the Netherlands. Europ. J. of Med. Genet. 2009, 52: 161-169.View ArticleGoogle Scholar


© Hussein et al; licensee BioMed Central Ltd. 2014

This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (, which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.