Related Experiment Video
Updated: May 17, 2026
Using Human Differentially Expressed Gene Lists to Perform Downstream Pathway Enrichment Analysis and Target Prioritization
Published on: October 3, 2025
DvD: An R/Cytoscape pipeline for drug repurposing using public repositories of gene expression data
Clare Pacini1, Francesco Iorio, Emanuel Gonçalves
1European Bioinformatics Institute (EMBL-EBI), Wellcome Trust Genome Campus, Cambridge, UK CB10 1SD.
Summary:
Drug versus Disease (DvD) provides a pipeline, available through R or Cytoscape, for the comparison of drug and disease gene expression profiles from public microarray repositories. Negatively correlated profiles can be used to generate hypotheses of drug-repurposing, whereas positively correlated profiles may be used to infer side effects of drugs. DvD allows users to compare drug and disease signatures with dynamic access to databases Array Express, Gene Expression Omnibus and data from the Connectivity Map.
Availability And Implementation:
R package (submitted to Bioconductor) under GPL 3 and Cytoscape plug-in freely available for download at www.ebi.ac.uk/saezrodriguez/DVD/.
