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Nucleic Acids Research Advance Access originally published online on April 30, 2009
Nucleic Acids Research 2009 37(Web Server issue):W273-W276; doi:10.1093/nar/gkp292
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Nucleic Acids Research, 2009, Vol. 37, No. suppl_2 W273-W276
© 2009 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Articles

DIANA-microT web server: elucidating microRNA functions through target prediction

M. Maragkakis1, M. Reczko1,6, V. A. Simossis1, P. Alexiou1, G. L. Papadopoulos1, T. Dalamagas2, G. Giannopoulos2,3, G. Goumas4, E. Koukis4, K. Kourtis4, T. Vergoulis2,3, N. Koziris4, T. Sellis2,3, P. Tsanakas4 and A. G. Hatzigeorgiou1,5,*

1Department of Molecular Oncology, Biomedical Sciences Research Center ‘Alexander Fleming’, Vari, 2Department for the Management of Information Systems, "Athena" Research Center, Athens, 3Knowledge and Database Systems Lab, Department of Computer Science, School of Electrical and Computer Engineering, National Technical University of Athens, 4Computing Systems Laboratory, Department of Computer Science, School of Electrical and Computer Engineering, National Technical University of Athens, 5Department of Computer and Information Sciences, University of Pennsylvania, Philadelphia, PA, USA and 6Synaptic Ltd., Heraklion, Greece

*To whom correspondence should be addressed. Tel: +30 210 9656310, Ext. 190; Fax: +30 210 9653934; Email: hatzigeorgiou{at}fleming.gr

Received February 22, 2009. Accepted April 14, 2009.

Computational microRNA (miRNA) target prediction is one of the key means for deciphering the role of miRNAs in development and disease. Here, we present the DIANA-microT web server as the user interface to the DIANA-microT 3.0 miRNA target prediction algorithm. The web server provides extensive information for predicted miRNA:target gene interactions with a user-friendly interface, providing extensive connectivity to online biological resources. Target gene and miRNA functions may be elucidated through automated bibliographic searches and functional information is accessible through Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways. The web server offers links to nomenclature, sequence and protein databases, and users are facilitated by being able to search for targeted genes using different nomenclatures or functional features, such as the genes possible involvement in biological pathways. The target prediction algorithm supports parameters calculated individually for each miRNA:target gene interaction and provides a signal-to-noise ratio and a precision score that helps in the evaluation of the significance of the predicted results. Using a set of miRNA targets recently identified through the pSILAC method, the performance of several computational target prediction programs was assessed. DIANA-microT 3.0 achieved there with 66% the highest ratio of correctly predicted targets over all predicted targets. The DIANA-microT web server is freely available at www.microrna.gr/microT.


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