TY - JOUR
T1 - Drug repurposing hypothesis generation using the "RE:fine drugs" system
AU - Regan, Kelly
AU - Moosavinasab, Soheil
AU - Payne, Philip
AU - Lin, Simon
N1 - Publisher Copyright:
© 2016 Creative Commons Attribution-NonCommercial-NoDerivs 3.0 Unported License.
PY - 2016/12/11
Y1 - 2016/12/11
N2 - The promise of drug repurposing is that existing drugs may be used for new disease indications in order to curb the high costs and time for approval. The goal of computational methods for drug repurposing is to enable solutions for safer, cheaper and faster drug discovery. Towards this end, we developed a novel method that integrates genetic and clinical phenotype data from large-scale GWAS and PheWAS studies with detailed drug information on the concept of transitive Drug-Gene-Disease triads. We created "RE:fine Drugs," a freely available, interactive dashboard that automates gene, disease and drug-based searches to identify drug repurposing candidates. This web-based tool supports a user-friendly interface that includes an array of advanced search and export options. Results can be prioritized in a variety of ways, including but not limited to, biomedical literature support, strength and statistical significance of GWAS and/or PheWAS associations, disease indications and molecular drug targets. Here we provide a protocol that illustrates the functionalities available in the "RE:fine Drugs" system and explores the different advanced options through a case study.
AB - The promise of drug repurposing is that existing drugs may be used for new disease indications in order to curb the high costs and time for approval. The goal of computational methods for drug repurposing is to enable solutions for safer, cheaper and faster drug discovery. Towards this end, we developed a novel method that integrates genetic and clinical phenotype data from large-scale GWAS and PheWAS studies with detailed drug information on the concept of transitive Drug-Gene-Disease triads. We created "RE:fine Drugs," a freely available, interactive dashboard that automates gene, disease and drug-based searches to identify drug repurposing candidates. This web-based tool supports a user-friendly interface that includes an array of advanced search and export options. Results can be prioritized in a variety of ways, including but not limited to, biomedical literature support, strength and statistical significance of GWAS and/or PheWAS associations, disease indications and molecular drug targets. Here we provide a protocol that illustrates the functionalities available in the "RE:fine Drugs" system and explores the different advanced options through a case study.
KW - Database
KW - Drug discovery
KW - Drug repurposing
KW - Genome-wide association study (GWAS)
KW - Hypothesis generation
KW - Issue 118
KW - Medicine
KW - Phenome-wide association study (PheWAS)
UR - http://www.scopus.com/inward/record.url?scp=85008690174&partnerID=8YFLogxK
U2 - 10.3791/54948
DO - 10.3791/54948
M3 - Article
C2 - 28060329
AN - SCOPUS:85008690174
SN - 1940-087X
VL - 2016
JO - Journal of Visualized Experiments
JF - Journal of Visualized Experiments
IS - 118
M1 - e54948
ER -