SubtypeDrug

MaRDI QIDQ7387739CRANFDO

Authors Junwei Han, Xudong Han, Chonghui Liu

Last update 17 April 2024

Copyright license GNU General Public License, version 2.0, GNU General Public License, version 3.0

Software version identifier PACKAGES.rds, 0.1.0, 0.1.1, 0.1.2, 0.1.3, 0.1.4, 0.1.5, 0.1.6, 0.1.7, 0.1.8, 0.1.9

Description

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>). Please cite using <doi:10.1093/bioinformatics/btab011>.

Cites work

• GSVA: gene set variation analysis for microarray and RNA-Seq data
• psSubpathway: a software package for flexible identification of phenotype-specific subpathways in cancer progression
• SubtypeDrug: a software package for prioritization of candidate cancer subtype-specific drugs
• The Connectivity Map: Using Gene-Expression Signatures to Connect Small Molecules, Genes, and Disease

This page was built for software: SubtypeDrug