Detection of gene amplification by genomic hybridization to cDNA microarrays

Mervi A. Heiskanen, Michael L. Bittner, Yidong Chen, Javed Khan, Karl E. Adler, Jeffrey M. Trent, Paul S. Meltzer

Research output: Contribution to journalArticle

86 Scopus citations

Abstract

Gene amplification is one of the major mechanisms of oncogene activation in tumorigenesis. To facilitate the identification of genes mapping to amplified regions, we have used a technique based on the hybridization of total genomic DNA to cDNA microarrays. To aid detection of the weak signals generated in this complex hybridization, we have used a tyramide-based technique that allows amplification of a fluorescent signal up to 1000-fold. Dilution experiment suggests that amplifications of 5-fold and higher can be detected by this approach. The technique was validated using cancer cell lines with several known gene amplifications, such as those affecting MYC, MYCN, ERBB2, and CDK4. In addition to the detection of the known amplifications, we identified a novel amplified gene, ZNF133, in the neuroblastoma cell line NGP. Hybridization of NGP cDNA on an identical array also revealed over expression of ZNF133. Parallel analysis of genomic DNA for copy number and cDNA for expression now provides rapid approach to the identification of amplified genes and chromosomal regions in tumor cells.

Original languageEnglish (US)
Pages (from-to)799-802
Number of pages4
JournalCancer Research
Volume60
Issue number4
StatePublished - Feb 15 2000
Externally publishedYes

ASJC Scopus subject areas

  • Oncology
  • Cancer Research

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    Heiskanen, M. A., Bittner, M. L., Chen, Y., Khan, J., Adler, K. E., Trent, J. M., & Meltzer, P. S. (2000). Detection of gene amplification by genomic hybridization to cDNA microarrays. Cancer Research, 60(4), 799-802.