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2000 Publication

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Systematic Variation in Gene Expression Patterns in Human Cancer Cell Lines

Ross, D.T., Scherf, U., Eisen, M.B., Perou, C.M., Spellman, P., Iyer, V., Jeffrey, S.S., Van de Rijn, M., Waltham, M., Pergamenschikov, A., Lee, J.C.F., Lashkari, D., Shalon, D., Myers, T.G., Weinstein, J.N., Botstein, D., and Brown, P.O.

Nature Genetics, 2000 March, 24(3):227-234

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Abstract: We used cDNA microarrays to explore the variation in expression of approximately 8000 unique genes among the 60 cell lines used in the National Cancer Institute's screen for anti-cancer drugs. Classification of the cell lines based solely on the observed patterns of gene expression revealed a striking correspondence to the ostensible origins of the tumours from which the cell lines were derived. The consistent relationship between the gene expression patterns to the tissue of origin enabled detection of outliers whose previous classification appeared incorrect. Specific features of the gene expression patterns were correlated with other known properties of the cell lines such as their doubling time in culture while others appeared to be related to physiological processes such as drug metabolism or the interferon response. Comparison of gene expression patterns in the cell lines to that in normal breast tissue and breast tumor specimens revealed features of the expression patterns in the tumours that had recognizable counterparts in different cell lines reflecting the tumour, stromal, and inflammatory components of the cancer specimens. Taken together, these results provided a novel molecular characterization of this important group of human cell lines and their relationships to tumors in vivo.


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