DGIdb 2.0: mining clinically relevant drug–gene interactions
Top Cited Papers
Open Access
- 3 November 2015
- journal article
- research article
- Published by Oxford University Press (OUP) in Nucleic Acids Research
- Vol. 44 (D1), D1036-D1044
- https://doi.org/10.1093/nar/gkv1165
Abstract
The Drug–Gene Interaction Database (DGIdb, www.dgidb.org) is a web resource that consolidates disparate data sources describing drug–gene interactions and gene druggability. It provides an intuitive graphical user interface and a documented application programming interface (API) for querying these data. DGIdb was assembled through an extensive manual curation effort, reflecting the combined information of twenty-seven sources. For DGIdb 2.0, substantial updates have been made to increase content and improve its usefulness as a resource for mining clinically actionable drug targets. Specifically, nine new sources of drug–gene interactions have been added, including seven resources specifically focused on interactions linked to clinical trials. These additions have more than doubled the overall count of drug–gene interactions. The total number of druggable gene claims has also increased by 30%. Importantly, a majority of the unrestricted, publicly-accessible sources used in DGIdb are now automatically updated on a weekly basis, providing the most current information for these sources. Finally, a new web view and API have been developed to allow searching for interactions by drug identifiers to complement existing gene-based search functionality. With these updates, DGIdb represents a comprehensive and user friendly tool for mining the druggable genome for precision medicine hypothesis generation.This publication has 33 references indexed in Scilit:
- GEMINI: Integrative Exploration of Genetic Variation and Genome AnnotationsPLoS Computational Biology, 2013
- Prioritizing Potentially Druggable Mutations with dGene: An Annotation Tool for Cancer Genome Sequencing DataPLOS ONE, 2013
- High-Throughput Detection of Actionable Genomic Alterations in Clinical Tumor Samples by Targeted, Massively Parallel SequencingCancer Discovery, 2012
- From pharmacogenomic knowledge acquisition to clinical applications: the PharmGKB as a clinical pharmacogenomic biomarker resourceBiomarkers in Medicine, 2011
- Therapeutic target database update 2012: a resource for facilitating target-oriented drug discoveryNucleic Acids Research, 2011
- Trends in the exploitation of novel drug targetsNature Reviews Drug Discovery, 2011
- Too many roads not takenNature, 2011
- Histological and genetic markers for non-small-cell lung cancer: Customizing treatment based on individual tumor biologyAmerican Journal of Health-System Pharmacy, 2010
- BioGPS: an extensible and customizable portal for querying and organizing gene annotation resourcesGenome Biology, 2009
- The druggable genome: an updateDrug Discovery Today, 2005