Drug-DNA Interaction Protocols

Volume 90 of the series Methods in Molecular Biology™ pp 1-22

DNase I Footprinting

  • Keith R. FoxAffiliated withDivision of Biochemistry and Molecular Biology, School of Biological Sciences, University of Southampton

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Footprinting provides a simple, quick, and reasonably inexpensive method for assessing the sequence specific interaction of ligands with DNA. Although the technique was developed in 1978 for studying the interaction of DNA-binding proteins with then target sites (1), it has proved invaluable for determining the sequence specificity of many small ligands