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Trends Biochem Sci 2015[Mar]; 40 (3): 157-64 PMID25636997show ga
RNA?protein interactions are pervasive. The specificity of these interactions dictates which RNAs are controlled by what protein. Here we describe a class of revolutionary new methods that enable global views of RNA-binding specificity in vitro, for both single proteins and multiprotein complexes. In vitro methods provide insight into central issues in RNA regulation in living cells, including understanding the balance between free and bound components in cells, the basis for exclusion of binding sites in vivo, detection of binding events in the absence of discernible regulatory elements, and new approaches to targeting specific cellular RNAs by design. Comparisons of in vitro and in vivo binding provide a foundation for comprehensive understanding of the biochemistry of protein-mediated RNA regulatory networks.