TAILIEUCHUNG - Predicting and validating microRNA targets

Opinion Predicting and validating microRNA targets Eric C Lai Address: 545 Life Sciences Addition, Department of Molecular and Cell Biology and Howard Hughes Medical Institute, University of California at Berkeley, Berkeley, CA 94720-3200, USA. E-mail: lai@ comment Published: 31 August 2004 Genome Biology 2004, 5:115 The electronic version of this article is the complete one and can be found online at © 2004 BioMed Central Ltd reviews Abstract reports Given that microRNAs select their targets by nucleotide base-pairing, it follows that it should be possible to find microRNA targets computationally. There has been considerable progress, but assessing success and biological significance requires a move into the ‘wet’. | Opinion Predicting and validating microRNA targets Eric C Lai Address 545 Life Sciences Addition Department of Molecular and Cell Biology and Howard Hughes Medical Institute University of California at Berkeley Berkeley CA 94720-3200 USA. E-mail lai@ Published 31 August 2004 Genome Biology 2004 5 115 The electronic version of this article is the complete one and can be found online at http 2004 5 9 ll5 2004 BioMed Central Ltd Abstract Given that microRNAs select their targets by nucleotide base-pairing it follows that it should be possible to find microRNA targets computationally. There has been considerable progress but assessing success and biological significance requires a move into the wet lab. Traditional thinking regarding gene regulation was shaken by the recent discovery of microRNAs miRNAs an abundant class of endogenous 21-22-nucleotide RNAs that mediate post-transcriptional regulation via components of the RNA-interference RNAi pathway either by directing target transcript cleavage or by translational inhibition Figure 1a 1 2 . Early miRNA discovery relied upon cloning and sequencing of small RNAs to find those whose corresponding genomic loci adopted an extended hairpin structure as RNA such a structure is an obligate precursor to the mature miRNA. Effective computational methods were later developed that recognize miRNA precursors as a particular class of evolutionarily conserved RNA hairpins. Hundreds of different miRNAs have now been identified in complex eukaryotes implying that they mediate a vast network of unappreciated regulatory interactions. Nevertheless the in vivo functions and biologically relevant target genes are thus far known only for a few miRNAs. Given that target selection is guided by the miRNA sequence can miRNA targets be predicted informatically Plant miRNAs have it easy An early success in the bioinformatic hunt for miRNA target genes came in plants. In late 2002 it was reported that probable .

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