on 08-17-201202:03 AM - edited on 10-15-202110:43 AM by Closed Account
Scheibe M, Butter F, Hafner M, Tuschl T, Mann M. Nucleic Acids Res. 2012 Oct 1;40(19):9897-902. Systematic analysis of the RNA-protein interactome requires robust and scalable methods. We here show the combination of two completely orthogonal, generic techniques to identify RNA-protein interactions: PAR-CLIP reveals a collection of RNAs bound to a protein whereas SILAC-based RNA pull-downs identify a group of proteins bound to an RNA. We investigated binding sites for five different proteins (IGF2BP1-3, QKI and PUM2) exhibiting different binding patterns. We report near perfect agreement between the two approaches. Nevertheless, they are non-redundant, and ideally complement each other to map the RNA-protein interaction network.