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.
Publication types
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Research Support, Non-U.S. Gov't
MeSH terms
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Argonaute Proteins / genetics
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Argonaute Proteins / metabolism*
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Base Pairing
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Binding Sites
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Biophysical Phenomena*
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Data Interpretation, Statistical
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Databases, Genetic
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Gene Targeting* / methods
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HEK293 Cells
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HeLa Cells
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Humans
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Immunoprecipitation
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MicroRNAs / genetics*
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MicroRNAs / metabolism
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Models, Biological*
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Probability
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Protein Binding
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RNA, Messenger / genetics*
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RNA, Messenger / metabolism
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Transcriptome
Substances
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AGO2 protein, human
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Argonaute Proteins
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MicroRNAs
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RNA, Messenger