DrugVsDisease

DrugVsDisease analyzes differential gene expression profiles to compare drug and disease transcriptional signatures and compute enrichment scores for biological interpretation.

Key Features:

• Data Input Flexibility: Accepts input from Array Express, GEO, or local CEL files for sourcing experimental data.
• Differential Expression Analysis: Employs the Limma package to generate ranked lists of differentially expressed genes and associated p-values for microarray and RNA-seq data.
• Enrichment Scoring: Computes enrichment scores against a reference set, using either default drug or disease profiles or custom datasets supplied by users.

Scientific Applications:

• Comparative Analysis: Enables comparative studies of disease and drug differential expression profiles to investigate underlying molecular mechanisms.
• Drug Repurposing and Discovery: Supports comparison of drug profiles against disease profiles to inform drug repurposing and identification of therapeutic targets.

Methodology:

Computations use the Limma package to produce ranked differential expression lists with p-values, compute enrichment scores against reference sets (default drug or disease profiles or custom datasets), and are implemented within the Bioconductor project using the R programming language.