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Trends Biochem Sci. 1998 Mar;23(3):109-13.

Specificity, free energy and information content in protein-DNA interactions.

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  • 1Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder 80309-0347, USA. Stormo@Colorado.Edu


Site-specific DNA-protein interactions can be studied using experimental and computational methods. Experimental approaches typically analyze a protein-DNA interaction by measuring the free energy of binding under a variety of conditions. Computational methods focus on alignments of known binding sites for a protein, and, from these alignments, make estimates of the binding energy. Understanding the relationship between these two perspectives, and finding ways to improve both, is a major challenge of modern molecular biology.

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