title: A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets.
abstract: We introduce a biophysical model of miRNA-target interaction and infer its parameters from Argonaute 2 cross-linking and immunoprecipitation data. We show that a substantial fraction of human miRNA target sites are noncanonical and that predicted target-site affinity correlates well with the extent of target destabilization. Our model provides a rigorous biophysical approach to miRNA target identification beyond ad hoc miRNA seed-based methods.
authors: Biozentrum, University of Basel, Basel, Switzerland.
authors: Mohsen
authors: M
authors: Khorshid
authors: Jean
authors: J
authors: Hausser
authors: Mihaela
authors: M
authors: Zavolan
authors: Erik
authors: E
authors: van Nimwegen
mesh_terms: D060565:Argonaute Proteins / Q000235:genetics / Q000378:metabolism*; D020029:Base Pairing; D001665:Binding Sites; D055592:Biophysical Phenomena; D003627:Data Interpretation, Statistical; D030541:Databases, Genetic; D018390:Gene Targeting / Q000379:methods; D057809:HEK293 Cells; D006367:HeLa Cells; D006801:Humans; D047468:Immunoprecipitation; D035683:MicroRNAs / Q000235:genetics* / Q000378:metabolism; D008954:Models, Biological; D011336:Probability; D011485:Protein Binding; D012333:RNA, Messenger / Q000235:genetics* / Q000378:metabolism; D059467:Transcriptome
chemical_list: C466422:AGO2 protein, human; D060565:Argonaute Proteins; D035683:MicroRNAs; D012333:RNA, Messenger