Comparing cDNA and oligonucleotide array data: concordance of gene expression across platforms for the NCI-60 cancer cells.

Jae K. Lee, Kimberly J. Bussey, Fuad G. Gwadry, William Reinhold, Gregory Riddick, Sandra L. Pelletier, Satoshi Nishizuka, Gergely Szakacs, Jean Phillipe Annereau, Uma Shankavaram, Samir Lababidi, Lawrence H. Smith, Michael M. Gottesman, John N. Weinstein

Research output: Contribution to journalArticle

93 Citations (Scopus)

Abstract

Microarray gene-expression profiles are generally validated one gene at a time by real-time RT-PCR. We describe here a different approach based on simultaneous mutual validation of large numbers of genes using two different expression-profiling platforms. The result described here for the NCI-60 cancer cell lines is a consensus set of genes that give similar profiles on spotted cDNA arrays and Affymetrix oligonucleotide chips. Global concordance is parameterized by a 'correlation of correlations' coefficient.

Original languageEnglish
Pages (from-to)R82
JournalGenome biology
Volume4
Issue number12
Publication statusPublished - 2003

ASJC Scopus subject areas

  • Ecology, Evolution, Behavior and Systematics
  • Genetics
  • Cell Biology

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  • Cite this

    Lee, J. K., Bussey, K. J., Gwadry, F. G., Reinhold, W., Riddick, G., Pelletier, S. L., Nishizuka, S., Szakacs, G., Annereau, J. P., Shankavaram, U., Lababidi, S., Smith, L. H., Gottesman, M. M., & Weinstein, J. N. (2003). Comparing cDNA and oligonucleotide array data: concordance of gene expression across platforms for the NCI-60 cancer cells. Genome biology, 4(12), R82.