The example data in the package comes from a pre-clinical evaluation study of an active compound in microarray setting. The dose-response microarray data contains 1000 genes and 6 doses (0 (control), 0.01, 0.04, 0.16, 0.63, 2.5 mg/kg) with 4-5 arrays at each dose level.
The data set, which has 1000 features and 26 samples, is placed in a workspace called "dopamine2.RDA" . The data is provided inside folder exampleData of the IsoGeneGUI package (will be automatically opened when we choose " File > open dataset > R workspace " in the package).
The "dopamine2" workspace contains two objects: "dose" and "dopamine". The object "dopamine" contains gene expression matrix and the object "dose" provides the dose levels.
References:
- Testing for Trend in Dose-Response Microarray Experiments: a Comparison of Testing Procedures, Multiplicity, and Resampling-Based Inference, Lin et al. 2007, Stat. App. in Gen. & Mol. Bio., 6(1), article 26.
- Gene Expression Studies Using Affymetrix Microarrays, Goehlmann, H. and Talloen, W., Chapman & Hall/CRC, 2009
- Analysis of Dose-response Studies in Microarray Experiments using The R IsoGene Package, Pramana et al. 2010, Journal of Statistical Software, xx, xxxx.
Example Data: Dopamine Study