MicroRNA targets in Drosophila |
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| Authors: | Enright Anton J John Bino Gaul Ulrike Tuschl Thomas Sander Chris Marks Debora S |
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| Institution: | (1) Computational Biology Center, Memorial Sloan-Kettering Cancer Center, 1275 York Avenue, 10021 New York, NY, USA;(2) Laboratory of Developmental Neurogenetics, The Rockefeller University, 1230 York Avenue, 10021 New York, NY, USA;(3) Laboratory of RNA Molecular Biology, The Rockefeller University, 1230 York Avenue, 10021 New York, NY, USA;(4) Columbia Genome Center, Russ Berrie Pavilion, 1150 St. Nicholas Avenue, 10032 New York, NY, USA; |
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| Abstract: | Background The recent discoveries of microRNA (miRNA) genes and characterization of the first few target genes regulated by miRNAs in
Caenorhabditis elegans and Drosophila melanogaster have set the stage for elucidation of a novel network of regulatory control. We present a computational method for whole-genome
prediction of miRNA target genes. The method is validated using known examples. For each miRNA, target genes are selected
on the basis of three properties: sequence complementarity using a position-weighted local alignment algorithm, free energies
of RNA-RNA duplexes, and conservation of target sites in related genomes. Application to the D. melanogaster, Drosophila pseudoobscura and Anopheles gambiae genomes identifies several hundred target genes potentially regulated by one or more known miRNAs. |
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