HUMANMOUSEINFORMATIONCONTACT|
MicroRNA target prediction (MiRTP) provides the possibilty to search for potential human and mouse microRNA target genes.
For this purpose the results of several prediction tools can be combined. It is possible to choose a microRNA, select 1 or more tools, the number to be considered out of the selected tools, and the logical catenation. For example if 4 tools are selected, the number of tools to be considered is 2, and the logical operation is "AND", than MiRTP will find microRNA targets predicted at least from 2 of the 4 selected tools. Data were derived from public available lists of individual prediction tools for human and mouse:  For mouse additionally target prediction by seed matches (nucleotide 1-7, 1-8, 1-9, 2-7, 2-8, 2-9 in the mature microRNA sequences from MirBase) and between human and mouse conserved seed matches ( based on mm9/hg18 genome alignment) are provided. References: Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. miRBase: microRNA sequences, targets and gene nomenclature. Nucl Acids Res 34:D140-D144 (2006) Lewis BP, Burge CB, Bartel DP. Conserved Seed Pairing, Often Flanked by Adenosines, Indicates that Thousands of Human Genes are MicroRNA Targets. Cell 120:15-20 (2005). Krek A, Grun D, Poy MN, Wolf R, Rosenberg L, Epstein EJ, Macmenamin P, da Piedade I, Gunsalus KC, Stoffel M, Rajewsky N. Nature Genetics 37:495-500 (2005). Huynh T, Miranda K, Tay Y, Ang YS, Tam WS, Thomson AM, Lim B, Rigoutsos I. A pattern-based method for the identification of microRNA-target sites and their corresponding RNA/RNA complexes. Cell 126:1203-1217 (2006). John B, Enright AJ, Aravin A, Tuschl T, Sander C, Marks DS. Human MicroRNA Targets. PLoS Biol 2:e363-e363 (2004). Kertesz M, Iovino N, Unnerstall U, Gaul U, Segal E. The role of site accessibility in microRNA target recognition. Nat Genet 39:1278-84 (2007). Gaidatzis D, van Nimwegen E, Hausser J, Zavolan M. Inference of miRNA targets using evolutionary conservation and pathway analysis. BMC Bioinformatics 8: 69-69 (2007). Kiriakidou M, Nelson PT, Kouranov A, Fitziev P, Bouyioukos C, Mourelatos Z, Hatzigeorgiou A. A combined computational-experimental approach predicts human microRNA targets. Genes Dev 18:1165-78 (2004). |