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Langevin dynamics is employed to study the looping kinetics of self-avoiding polymers both in ideal and crowded solutions. A rich kinetics results from the competition of two crowding-induced effects: the depletion attraction and the enhanced viscous friction. For short chains, the enhanced friction slows down looping, while for longer chains, the depletion attraction renders it more frequent and persistent. We discuss the possible relevance of the findings for chromatin looping in living cells.

Original publication

DOI

10.1103/PhysRevLett.97.178302

Type

Journal article

Journal

Phys Rev Lett

Publication Date

27/10/2006

Volume

97

Keywords

Chromatin, DNA, DNA-Directed DNA Polymerase, DNA-Directed RNA Polymerases, Kinetics, Models, Chemical, Models, Molecular, Molecular Conformation, Polymers, Stereoisomerism, Thermodynamics