Anomalous diffusion in the interphase cell nucleus: the effect of spatial correlations of chromatin

The Journal of Chemical Physics
Christian C Fritsch, Jörg Langowski

Abstract

The metabolism of a living cell requires a permanent transfer of molecules throughout the cell and beyond its bounds. Within cell nuclei, molecules are predominantly driven by diffusion, which is influenced by the chromatin network. We propose a quantity related to the pair correlation function to measure the diffusion-relevant clumpiness of chromatin. Using Monte Carlo lattice simulations, we investigate to what extent diffusion can be anomalous due to obstruction by the chromatin network. Chromatin is simulated by a wormlike chain on a lattice, which exhibits different types of loop-induced compartmentalization on a subchromosomal level. Our simulation results show that the proposed measure of clumpiness is suitable to quantify the compartmentalization of chromatin and to connect it to diffusion anomaly parameters, critical molecule sizes for trapping and the transition lengths at which diffusion becomes normal at long times.

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Citations

Dec 1, 2010·Chromosome Research : an International Journal on the Molecular, Supramolecular and Evolutionary Aspects of Chromosome Biology·Christian C Fritsch, Jörg Langowski
Apr 20, 2011·Cold Spring Harbor Symposia on Quantitative Biology·T LionnetD R Larson
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Methods Mentioned

BETA
fluorescence correlation spectroscopy

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