mirDIP : microRNA Data Integration Portal


References :

DIANA-microT (ver. 3.0)
  • Maragkakis M, Alexiou P, Papadopoulos GL, Reczko M, Dalamagas T, Giannopoulos G, Goumas G, Koukis E, Kourtis K, Simossis VA et al: Accurate microRNA target prediction correlates with protein repression levels. BMC Bioinformatics 2009, 10:295.
  • Maragkakis M, Reczko M, Simossis VA, Alexiou P, Papadopoulos GL, Dalamagas T, Giannopoulos G, Goumas G, Koukis E, Kourtis K et al: DIANA-microT web server: elucidating microRNA functions through target prediction. Nucleic Acids Res 2009, 37(Web Server issue):W273-276.
microRNA.org (Sept. 2008)
  • Betel, D., Wilson, M., Gabow, A., Marks, D.S. and Sander, C. (2008). The microRNA.org resource: targets and expression. Nucleic Acids Res 36, D149-53.
  • John, B., Enright, A.J., Aravin, A., Tuschl, T., Sander, C. and Marks, D.S. (2004). Human MicroRNA targets. PLoS Biol 2, e363.
microCosm (ver. 5 )
  • Enright, A.J., John, B., Gaul, U., Tuschl, T., Sander, C. and Marks, D.S. (2003). MicroRNA targets in Drosophila. Genome Biol 5, R1.
  • Griffiths-Jones, S., Grocock, R.J., van Dongen, S., Bateman, A. and Enright, A.J. (2006). miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Res 34, D140-4.
  • Griffiths-Jones, S., Saini, H.K., van Dongen, S. and Enright, A.J. (2008). miRBase: tools for microRNA genomics. Nucleic Acids Res 36, D154-8.
picTar (Mar. 2007)
  • Chen, K. and Rajewsky, N. (2006). Natural selection on human microRNA binding sites inferred from SNP data. Nat Genet 38, 1452-6.
  • Grun, D., Wang, Y.L., Langenberger, D., Gunsalus, K.C. and Rajewsky, N. (2005). microRNA target predictions across seven Drosophila species and comparison to mammalian targets. PLoS Comput Biol 1, e13.
  • Krek, A. et al. (2005). Combinatorial microRNA target predictions. Nat Genet 37, 495-500.
  • Lall, S. et al. (2006). A genome-wide map of conserved microRNA targets in C. elegans. Curr Biol 16, 460-71.
PITA (ver. 6 Aug. 2008)
  • Kertesz, M., Iovino, N., Unnerstall, U., Gaul, U. and Segal, E. (2007). The role of site accessibility in microRNA target recognition. Nat Genet 39, 1278-84.
RNA22 (Aug. 2007)
  • Miranda, K.C., Huynh, T., Tay, Y., Ang, Y.S., Tam, W.L., Thomson, A.M., Lim, B. and Rigoutsos, I. (2006). A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes. Cell 126, 1203-17.
TargetScan (Release 5.0 Dec. 2008)
  • Friedman, R.C., Farh, K.K., Burge, C.B. and Bartel, D.P. (2009). Most mammalian mRNAs are conserved targets of microRNAs. Genome Res 19, 92-105.
  • Grimson, A., Farh, K.K., Johnston, W.K., Garrett-Engele, P., Lim, L.P. and Bartel, D.P. (2007). MicroRNA targeting specificity in mammals: determinants beyond seed pairing. Mol Cell 27, 91-105.
  • Lewis, B.P., Burge, C.B. and Bartel, D.P. (2005). Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets. Cell 120, 15-20.

All contents copyright , Jurisica Lab, Ontario Cancer Institute, Princess Margaret Hospital/UHN. Last modified January, 2012. (Version 1.1.2)

All downloads and use of this database are subject to the following terms.

Permission to use, copy, and modify this database hereby granted to all academic and not-for-profit institutions without fee, provided that name of organization and author appear in all copies of the database. Under these conditions, the permission to modify and distribute or to make extended versions of the database is explicitly granted to non-profit organizations. All commercial entities willing to download or use the database must contact the authors. This database is provided "AS-IS" and with out any warranty of any kind. In no event shall Ontario Cancer Institute or the authors be liable for any consequential damage of any kind, or any damages resulting from the use of this database.

Reference:
Shirdel EA, Xie W, Mak TW, Jurisica I, 2011 NAViGaTing the Micronome . Using Multiple MicroRNA Prediction Databases to Identify Signalling Pathway-Associated MicroRNAs. PLoS ONE 6(2): e17429. doi:10.1371/journal.pone.0017429