In the era of clinical sequencing and personalized medicine, investigators are frequently presented with lists of mutated or otherwise altered genes implicated in disease for a specific patient or cohort. Numerous resources exist to help form hypotheses about how such genomic events might be targeted therapeutically. However, utilizing these resources typically involves tedious manual review of literature, clinical trial records, and knowledgebases. Few currently exist which collect and curate these resources and provide a simple interface for searching lists of genes against the existing compendia of known or potential drug-gene interactions. The drug-gene interaction database (DGIdb) attempts to address this challenge. Using a combination of expert curation and text-mining, drug-gene interactions have been mined from DrugBank, PharmGKB, ChEMBL, Drug Target Commons, and others. Genes have also been categorized as potentially druggable according to membership in selected pathways, molecular functions and gene families from the Gene Ontology, the Human Protein Atlas, IDG, "druggable genome" lists from Hopkins and Groom (2002) and Russ and Lampel (2005), and others. Drug and gene grouping is provided by the VICC Gene and Therapy Normalizer services. DGIdb contains over 10,000 genes and 20,000 drugs involved in nearly 70,000 drug-gene interactions or belonging to one of 43 potentially druggable gene categories. Users can enter a list of genes to retrieve all known or potentially druggable genes in that list. Results can be filtered by source, interaction type, or gene category. DGIdb is built on Ruby on Rails and PostgreSQL with a flexible relational database schema to accommodate metadata from various sources.
Drug-Gene Interaction Database (DGIdb)
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