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Methods Mol Biol. 2008;488:99-115. doi: 10.1007/978-1-60327-475-3_7.

Quantitative analysis of protein-RNA interactions by gel mobility shift.

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1
Department of Biochemistry and Molecular Pharmacology, UMass Medical School, Worcester, Massachusetts, USA.

Abstract

The gel mobility shift assay is routinely used to visualize protein-RNA interactions. Its power resides in the ability to resolve free from bound RNA with high resolution in a gel matrix. We review the quantitative application of this approach to elucidate thermodynamic properties of protein-RNA complexes. Assay designs for titration, competition, and stoichiometry experiments are presented for two unrelated model complexes.

PMID:
18982286
PMCID:
PMC2928675
DOI:
10.1007/978-1-60327-475-3_7
[Indexed for MEDLINE]
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