Part of the large pharmacogenomic dataset published by Garnett et al. within the Cancer Genome Project (CGP)
This dataset contains gene expression of 200 cancer cell lines for which sensitivity (IC50) to Camptothecin was measured (release 2).
Camptothecin is a drug mainly used in colorectal cancer.
cgps dataset is composed of three objects
- Dataframe containing gene annotations
- Matrix containing expressions of 1000 genes; cell lines in rows, genes in columns
- Drug sensitivity measurements (IC50) for Camptothecin
Garnett MJ et al. "Systematic identification of genomic markers of drug sensitivity in cancer cells", Nature, 483:570-575, 2012.
set.thread.count(2) data(cgps) message("Gene expression data:") print(cgps.ge[1:3, 1:3]) message("Gene annotations:") print(head(cgps.annot)) message("Drug sensitivity (IC50) values:") print(head(cgps.ic50))