"In silico" comparison of the transcriptome derived from purified normal breast cells and breast tumor cell lines reveals candidate up-regulated genes in breast tumor cells.

R.R. Brentani 1 M.R. Leerkes 1, O.L. Caballero 1, H. Torloni, 2, M.J. O'Hare 3, A.J.G. Simpson 1, S.J. de Souza 1

1Ludwig Institute for Cancer Research, Rua Prof. Antonio Prudente, 109, 4o andar, São Paulo SP 01509-010, Brazil 2 Hospital AC Camargo, Rua Prof. Antonio Prudente 109, São Paulo SP 01509-010, Brazil 3 Ludwig Institute for Cancer Research, 67-73 Riding House Street, London, W1P 7LD, United Kingdom

Genes that are differentially expressed in tumor tissues are potential diagnostic markers and drug targets. The DNA sequence information available in the public databases can be used to identify transcripts differentially expressed in cancer. We report here the combined use of the ORESTES sequences generated in the FAPESP/LICR Human Cancer Genome Project and information available in the UniGene and SAGE databases to characterize the transcriptome of normal and breast tumor cells. We have identified 154 genes as candidates for being overexpressed in breast tumor cells. Among these, 28 genes have been shown by others to be overexpressed in breast or other tumors. Using RT-PCR we tested 11 candidate genes and found that 9 were indeed overexpressed in breast tumor.

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Paper presented at the International Symposium on Predictive Oncology and Intervention Strategies; Paris, France; February 9 - 12, 2002; in the section on Cancer Genomics.