multidrug {integrOmics} | R Documentation |
This data set contains the expression of 48 known human ABC transporters with patterns of drug activity in 60 diverse cancer cell lines (the NCI-60) used by the National Cancer Institute to screen for anticancer activity.
data(multidrug)
A list containing the following components:
ABC.transp
compound
comp.name
cell.line
Sample
the names of the 60 cell line which were analysed, and Class
the
phenotypes of the 60 cell lines.The data come from a pharmacogenomic study (Szakács et al., 2004) in which two kinds of measurements acquired on the NCI-60 cancer cell lines are considered:
The NCI-60 panel includes cell lines derived from cancers of colorectal (7 cell lines), renal(8), ova-rian(6), breast(8), prostate(2), lung(9) and central nervous system origin(6), as well as leukemias(6) and melanomas(8). It was set up by the Developmental Therapeutics Program of the National Cancer Institute (NCI, one of the U.S. National Institutes of Health) to screen the toxicity of chemical compound repositories. The expressions of the 48 human ABC transporters is available as a supplement to the paper of Szakács et al. (2004).
The drug dataset consiste of 118 compounds whose mechanisms of action are putatively classifiable (Weinstein et al., 1992) and a larger set of 1400 compounds that have been tested multiple times and whose screening data met quality control criteria described elsewhere (Scherf et al., 2000). The two were combined to form a joint dataset that included 1429 compounds.
The NCI dataset was downloaded from The Genomics and Bioinformatics Group Supplemental Table S1 to the paper of Szakács et al. (2004), http://discover.nci.nih.gov/abc/2004_cancercell_abstract.jsp#supplement
The two drug data sets are a companion resource for the paper of Scherf et al. (2000), and was downloaded from http://discover.nci.nih.gov/datasetsNature2000.jsp.
Scherf, U., Ross, D. T., Waltham, M., Smith, L. H., Lee, J. K., Tanabe, L., Kohn, K. W., Reinhold, W. C., Myers, T. G., Andrews, D. T., Scudiero, D. A., Eisen, M. B., Sausville, E. A., Pommier, Y., Botstein, D., Brown, P. O. and Weinstein, J. N. (2000). A Gene Expression Database for the Molecular Pharmacology of Cancer. Nature Genetics, 24, 236-244.
Szakács, G., Annereau, J.-P., Lababidi, S., Shankavaram, U., Arciello, A., Bussey, K. J., Reinhold, W., Guo, Y., Kruh, G. D., Reimers, M., Weinstein, J. N. and Gottesman, M. M. (2004). Predicting drug sensivity and resistance: Profiling ABC transporter genes in cancer cells. Cancer Cell 4, 147-166.
Weinstein, J.N., Kohn, K.W., Grever, M.R., Viswanadhan, V.N., Rubinstein, L.V., Monks, A.P., Scudiero, D.A., Welch, L., Koutsoukos, A.D., Chiausa, A.J. et al. 1992. Neural computing in cancer drug development: Predicting mechanism of action. Science 258, 447-451.