MicroRNA Targeting Specificity in Mammals: Determinants beyond Seed Pairing.

@article{citeulike:1441835, abstract = {Mammalian microRNAs (miRNAs) pair to 3'UTRs of mRNAs to direct their posttranscriptional repression. Important for target recognition are approximately 7 nt sites that match the seed region of the miRNA. However, these seed matches are not always sufficient for repression, indicating that other characteristics help specify targeting. By combining computational and experimental approaches, we uncovered five general features of site context that boost site efficacy: AU-rich nucleotide composition near the site, proximity to sites for coexpressed miRNAs (which leads to cooperative action), proximity to residues pairing to miRNA nucleotides 13-16, positioning within the 3'UTR at least 15 nt from the stop codon, and positioning away from the center of long UTRs. A model combining these context determinants quantitatively predicts site performance both for exogenously added miRNAs and for endogenous miRNA-message interactions. Because it predicts site efficacy without recourse to evolutionary conservation, the model also identifies effective nonconserved sites and siRNA off-targets.}, address = {Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA.}, author = {Grimson, Andrew and Farh, Kyle Kai-How K. and Johnston, Wendy K K. and Garrett-Engele, Philip and Lim, Lee P P. and Bartel, David P P. }, citeulike-article-id = {1441835}, doi = {http://dx.doi.org/10.1016/j.molcel.2007.06.017}, issn = {1097-2765}, journal = {Mol Cell}, keywords = {mirna, target}, month = {July}, number = {1}, pages = {91--105}, posted-at = {2007-11-22 16:30:01}, priority = {2}, title = {MicroRNA Targeting Specificity in Mammals: Determinants beyond Seed Pairing.}, url = {http://dx.doi.org/10.1016/j.molcel.2007.06.017}, volume = {27}, year = {2007} }

TY - JOUR ID - citeulike:1441835 L3 - citeulike-article-id:1441835 TI - MicroRNA Targeting Specificity in Mammals: Determinants beyond Seed Pairing. JF - Mol Cell VL - 27 IS - 1 SP - 91 EP - 105 AD - Howard Hughes Medical Institute, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Whitehead Institute for Biomedical Research, 9 Cambridge Center, Cambridge, MA 02142, USA. SN - 1097-2765 N2 - Mammalian microRNAs (miRNAs) pair to 3'UTRs of mRNAs to direct their posttranscriptional repression. Important for target recognition are approximately 7 nt sites that match the seed region of the miRNA. However, these seed matches are not always sufficient for repression, indicating that other characteristics help specify targeting. By combining computational and experimental approaches, we uncovered five general features of site context that boost site efficacy: AU-rich nucleotide composition near the site, proximity to sites for coexpressed miRNAs (which leads to cooperative action), proximity to residues pairing to miRNA nucleotides 13-16, positioning within the 3'UTR at least 15 nt from the stop codon, and positioning away from the center of long UTRs. A model combining these context determinants quantitatively predicts site performance both for exogenously added miRNAs and for endogenous miRNA-message interactions. Because it predicts site efficacy without recourse to evolutionary conservation, the model also identifies effective nonconserved sites and siRNA off-targets. KW - mirna KW - target AU - Grimson, Andrew AU - Farh, Kyle Kai-How AU - Johnston, Wendy K AU - Garrett-Engele, Philip AU - Lim, Lee P AU - Bartel, David P PY - 2007/07/06/ UR - http://dx.doi.org/10.1016/j.molcel.2007.06.017 ER -