Article
RNA Sequence Context Effects Measured In Vitro Predict In Vivo Protein Binding and Regulation.
Molecular cell - 20 Oct 2016
Taliaferro J Matthew, Lambert Nicole J, Sudmant Peter H, Dominguez Daniel, Merkin Jason J, Alexis Maria S, Bazile Cassandra, Burge Christopher B
Abstract excerpt
Many RNA binding proteins (RBPs) bind specific RNA sequence motifs, but only a small fraction (∼15%-40%) of RBP motif occurrences are occupied in vivo. To determine which contextual features discriminate between bound and unbound motifs, we performed an in vitro binding assay using 12,000 mouse RNA sequences with the RBPs MBNL1 and RBFOX2. Surprisingly, the strength of binding to motif occurrences in vitro was...
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