SubtypeDrug: Prioritization of Candidate Cancer Subtype Specific Drugs

A systematic biology tool was developed to prioritize cancer subtype-specific drugs by integrating genetic perturbation, drug action, biological pathway, and cancer subtype. The capabilities of this tool include inferring patient-specific subpathway activity profiles in the context of gene expression profiles with subtype labels, calculating differentially expressed subpathways based on cultured human cells treated with drugs in the 'cMap' (connectivity map) database, prioritizing cancer subtype specific drugs according to drug-disease reverse association score based on subpathway, and visualization of results (Castelo (2013) <doi:10.1186/1471-2105-14-7>; Han et al (2019) <doi:10.1093/bioinformatics/btz894>; Lamb and Justin (2006) <doi:10.1126/science.1132939>).

Version: 0.1.0
Depends: R (≥ 2.10)
Imports: BiocGenerics, GSVA, grDevices, graphics, igraph, parallel, pheatmap, rvest, stats, xml2, devtools, ChemmineR
Suggests: knitr, rmarkdown
Published: 2020-05-16
Author: Xudong Han, Junwei Han, Chonghui Liu
Maintainer: Junwei Han <hanjunwei1981 at>
NeedsCompilation: no
CRAN checks: SubtypeDrug results


Reference manual: SubtypeDrug.pdf
Vignettes: SubtypeDrug: Prioritization of Candidate Cancer Subtype-specific Drugs
Package source: SubtypeDrug_0.1.0.tar.gz


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