Nucleic Acids Research Advance Access published online on October 27, 2008
Nucleic Acids Research, doi:10.1093/nar/gkn809
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The database of experimentally supported targets: a functional update of TarBase
1Institute of Molecular Oncology, Biomedical Sciences Research Center ‘Alexander Fleming’, 166 72 Varkiza, 2Synaptic Ltd, 711 10 Heraklion, Greece, 3National Human Genome Research Institute, Bethesda, MD 20892-8004 and 4Computer and Information Sciences, University of Pennsylvania, Philadelphia, PA, USA
*To whom correspondence should be addressed. Tel: +30 210 9656310 ext. 248; Fax: +30 210 9653934; Email: gipapado{at}fleming.gr
Correspondence may also be addressed to Artemis G. Hatzigeorgiou. Tel: +30 210 9656310, ext. 190; Fax: +30 210 9653934; Email: hatzigeorgiou{at}fleming.gr
Received September 15, 2008. Accepted October 10, 2008.
TarBase5.0 is a database which houses a manually curated collection of experimentally supported microRNA (miRNA) targets in several animal species of central scientific interest, plants and viruses. MiRNAs are small non-coding RNA molecules that exhibit an inhibitory effect on gene expression, interfering with the stability and translational efficiency of the targeted mature messenger RNAs. Even though several computational programs exist to predict miRNA targets, there is a need for a comprehensive collection and description of miRNA targets with experimental support. Here we introduce a substantially extended version of this resource. The current version includes more than 1300 experimentally supported targets. Each target site is described by the miRNA that binds it, the gene in which it occurs, the nature of the experiments that were conducted to test it, the sufficiency of the site to induce translational repression and/or cleavage, and the paper from which all these data were extracted. Additionally, the database is functionally linked to several other relevant and useful databases such as Ensembl, Hugo, UCSC and SwissProt. The TarBase5.0 database can be queried or downloaded from http://microrna.gr/tarbase.
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