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Revisiting the neighbor exclusion model and its applications
Author(s) -
Rocha Marcio S.
Publication year - 2010
Publication title -
biopolymers
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.556
H-Index - 125
eISSN - 1097-0282
pISSN - 0006-3525
DOI - 10.1002/bip.21296
Subject(s) - chemistry , persistence length , ligand (biochemistry) , constant (computer programming) , biological system , dna , statistical physics , computer science , molecule , physics , biochemistry , receptor , organic chemistry , biology , programming language
We review the neighbor exclusion model and some of its applications to analyze the binding data of DNA‐ligand complexes. We revisit the closed form of the model developed by McGhee and von Hippel in 1974, showing that this classic model can be used to help studying the behavior of DNA contour and persistence lengths when interacting with intercalating ligands. We present methods to quantitatively analyze the variation of these two quantities, allowing one to determine important parameters of the interaction such as the intrinsic binding constant and the exclusion number of the ligand. © 2009 Wiley Periodicals, Inc. Biopolymers 93: 1–7, 2010. This article was originally published online as an accepted preprint. The “Published Online” date corresponds to the preprint version. You can request a copy of the preprint by emailing the Biopolymers editorial office at biopolymers@wiley.com