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

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 journal › Article › peer-review

97 Scopus citations

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 language	English (US)
Pages (from-to)	R82
Journal	Genome biology
Volume	4
Issue number	12
State	Published - 2003
Externally published	Yes

ASJC Scopus subject areas

Ecology, Evolution, Behavior and Systematics
Genetics
Cell Biology

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.

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AU - Bussey, Kimberly J.

AU - Gwadry, Fuad G.

AU - Reinhold, William

AU - Riddick, Gregory

AU - Pelletier, Sandra L.

AU - Nishizuka, Satoshi

AU - Szakacs, Gergely

AU - Annereau, Jean Phillipe

AU - Shankavaram, Uma

AU - Lababidi, Samir

AU - Smith, Lawrence H.

AU - Gottesman, Michael M.

AU - Weinstein, John N.

PY - 2003

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AB - 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.

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

Abstract

ASJC Scopus subject areas

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