Genome-wide allelic imbalance analysis of pediatric gliomas by single nucleotide polymorphic allele array

Kwong-Kwok Wong, Yvonne T.M. Tsang, Yi-Mieng Chang, Jack Su, Angela M. Di Francesco, Daniela Meco, Riccardo Riccardi, Laszlo Perlaky, Robert C. Dauser, Adekunle Adesina, Meenakshi Bhattacharjee, Murali Chintagumpala, Ching C. Lau

Research output: Contribution to journalArticle

55 Citations (Scopus)


Using single nucleotide polymorphic (SNP) allele arrays, we analyzed 28 pediatric gliomas consisting of 14 high-grade gliomas and 14 low-grade gliomas. Most of the low-grade gliomas had no detectable loss of heterozygosity (LOH) in any of the 11,562 SNP loci; exceptions were two gangliogliomas (3q and 9p), one astrocytoma (6q), and two subependymal giant cell astrocytomas (16p and 21q). On the other hand, all high-grade gliomas had various degrees of LOH affecting 52 to 2,168 SNP loci on various chromosomes. LOH occurred most frequently in regions located at 4q (54%), 6q (46%), 9p (38%), 10q (38%), 11p (38%), 12 (38%), 13q (69%), 14q (54%), 17 (38%), 18p (46%), and 19q (38%). We also detected amplifications of epidermal growth factor receptor (EGFR) or platelet-derived growth factor receptor alpha (PDGFRalpha) in a few of the 13 cases of glioblastoma multiforme analyzed. Interestingly, the amplified EGFR and PDGFRalpha were located within regions of LOH. SNP loci with LOH and copy number changes were validated by sequencing and quantitative PCR, respectively. Our results indicate that, in some pediatric glioblastoma multiforme, one allele each of EGFR and PDGFRalpha was lost but the remaining allele was amplified. This may represent a new molecular mechanism underlying tumor progression.
Original languageEnglish
Pages (from-to)11172-11178
Number of pages7
JournalCancer Research
Publication statusPublished - 2006


  • allelic imbalance analysis
  • nucleotide polymorphic allele array
  • pediatric glioma


Dive into the research topics of 'Genome-wide allelic imbalance analysis of pediatric gliomas by single nucleotide polymorphic allele array'. Together they form a unique fingerprint.

Cite this