rDGIdb

rDGIdb queries the Drug Gene Interaction Database (DGIdb) from R/Bioconductor to retrieve drug–gene interaction annotations for interpreting DNA aberrations identified by next-generation sequencing (NGS).

Key Features:

• R/Bioconductor wrapper: Implements functions to query DGIdb directly from the R/Bioconductor environment.
• Comprehensive data aggregation: Accesses DGIdb, which aggregates drug–gene interaction data from 15 source databases.
• Filtering capabilities: Supports filtering of drug–gene interactions at multiple levels to refine query results.
• Automation of queries: Enables automated DGIdb queries that can be incorporated into NGS analysis pipelines.

Scientific Applications:

• Drug–gene annotation: Annotates genes bearing aberrations with known drug interactions to inform downstream analysis.
• Target identification: Identifies potential gene targets and associated drugs within aberrated genes or pathways.
• Precision medicine support: Facilitates exploration of therapeutic options linked to specific genomic alterations for precision-medicine investigations.

Methodology:

Queries DGIdb via R/Bioconductor functions using gene or pathway input derived from NGS analyses to retrieve matching drug–gene interactions and supports automation of these queries within NGS pipelines.