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. 2013 Mar;10(3):253-5.
doi: 10.1038/nmeth.2341. Epub 2013 Jan 20.

A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets

Mohsen Khorshid  1 , Jean Hausser, Mihaela Zavolan, Erik van Nimwegen
Affiliations

A biophysical miRNA-mRNA interaction model infers canonical and noncanonical targets

Mohsen Khorshid et al. Nat Methods. 2013 Mar.

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.

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