Method
Comparing cDNA and oligonucleotide array data: concordance of gene expression across platforms for the NCI-60 cancer cells
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* Corresponding authors: Jae K Lee jaeklee@virginia.edu - John N Weinstein weinstein@dtpax2.ncifcrf.gov
1 Laboratory of Molecular Pharmacology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892-8322, USA
2 Laboratory of Cell Biology, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD 20892-8322, USA
3 Current address: Department of Health Evaluation Sciences, University of Virginia School of Medicine, Charlottesville, VA 22908, USA
Genome Biology 2003, 4:R82 doi:10.1186/gb-2003-4-12-r82
Published: 25 November 2003Abstract
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.