customClust: Custom Clusters

In clarepacini/DrugVsDisease: Comparison of disease and drug profiles using Gene set Enrichment Analysis

Description

Matrix containing a set of drugs and their corresponding clusters which can be used as input to the classifyprofile function.

Usage

data(customClust)

Format

Data frame with 47 rows and 2 columns. Columns are headed "Drug" and "Cluster".

Details

Each row refers to a compound in the customDB data set link{customDB} with its corresponding cluster assignment in the second column. These profiles are a subset of the Connectivity Map data [1] (full set available in the DrugVsDiseasedata package DrugVsDiseasedata, data object drugRL, for example use. Clusters were generated using affinity propagation clustering [2]

Source

http://www.broadinstitute.org/cmap/

References

[1] Lamb J et~al. (2006) The Connectivity Map: Using Gene-Expression Signatures to Connect Small Molecules, Genes, and Disease. Science, 313(5795), 1929-1935. [2] U. Bodenhofer, A. Kothmeier, and S. Hochreiter. APCluster: an R package for affinity propagation clustering. Bioinformatics, 27(17):2463-2464, 2011.

Examples

data(customClust)

clarepacini/DrugVsDisease documentation built on May 24, 2019, 7:21 p.m.