Journal
BRIEFINGS IN BIOINFORMATICS
Volume 15, Issue 4, Pages 648-659Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bib/bbs082
Keywords
microRNAs; pharmacogenomics; database; web server; miRNA pharmacogenomic set; Pharmaco-miR
Funding
- Memorial Foundation of Eva and Henry Fraenkel
- Harboe Foundation
- Aase and Einar Danielsen Foundation
- Danish Council for Strategic Research
- Edmond J. Safra Center for Bioinformatics at Tel Aviv University
- Chief Scientist Office, Ministry of Health, Israel [3-4876]
- Israel Cancer Association
- Wolfson family Charitable Fund
- I-CORE Program of the Planning and Budgeting Committee
- Israel Science Foundation [41/11]
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MicroRNAs (miRNAs) are short regulatory RNAs that down-regulate gene expression. They are essential for cell homeostasis and active in many disease states. A major discovery is the ability of miRNAs to determine the efficacy of drugs, which has given rise to the field of 'miRNA pharmacogenomics' through 'Pharmaco-miRs'. miRNAs play a significant role in pharmacogenomics by down-regulating genes that are important for drug function. These interactions can be described as triplet sets consisting of a miRNA, a target gene and a drug associated with the gene. We have developed a web server which links miRNA expression and drug function by combining data on miRNA targeting and protein-drug interactions. miRNA targeting information derive from both experimental data and computational predictions, and protein-drug interactions are annotated by the Pharmacogenomics Knowledge base (PharmGKB). Pharmaco-miR's input consists of miRNAs, genes and/or drug names and the output consists of miRNA pharmacogenomic sets or a list of unique associated miRNAs, genes and drugs. We have furthermore built a database, named Pharmaco-miR Verified Sets (VerSe), which contains miRNA pharmacogenomic data manually curated from the literature, can be searched and downloaded via Pharmaco-miR and informs on trends and generalities published in the field. Overall, we present examples of how Pharmaco-miR provides possible explanations for previously published observations, including how the cisplatin and 5-fluorouracil resistance induced by miR-148a may be caused by miR-148a targeting of the gene KIT. The information is available at www.Pharmaco-miR.org.
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