ksRepo

ksRepo performs computational drug repositioning by integrating diverse gene expression data and database schemas to identify candidate therapeutics.

Key Features:

• Data Integration Flexibility: Eliminates dependency on a single microarray platform by accepting diverse gene expression inputs and drug/chemical exposure databases.
• Broad Database Compatibility: Interfaces with multiple gene expression datasets and database structures, including the Comparative Toxicogenomics Database (CTD).
• Performance Validation: Tested on five prostate cancer datasets, it predicted significant therapeutic candidates from over 7000 compounds in the CTD and achieved specificity comparable to existing repositioning methods.
• Implementation: Implemented in the R statistical environment.

Scientific Applications:

• Drug Repositioning: Identifies novel therapeutic applications of approved drugs and small molecules by comparing gene expression signatures with compound interaction data.
• Prostate Cancer Research: Applied to prostate cancer datasets to identify significant repositioning candidates among frontline therapies.

Methodology:

ksRepo employs a series of four functions within the R statistical environment to perform analyses on diverse gene expression and compound database inputs.