MODELLING OF POLYCOMB-DEPENDENT CHROMOSOMAL INTERACTIONS INVOLVED IN DROSOPHILA GENE SILENCING

DOI10.1142/S0129183106009400MaRDI QIDQ5481834zbMATH OpenOpenAlexFDO

Authors Silke Ritter, Jens Odenheimer, Dieter W. Heermann, Frederic Bantignies, Charlotte Grimaud, Giacomo Cavalli

Publication date 24 August 2006

Published in International Journal of Modern Physics C (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/q-bio/0511008

zbMATH Keywords

gene expressionmolecular dynamicsself-avoiding random walksbiomoleculesstructure and physical propertiesconstraint geormetry

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Genetics and epigenetics (92D10) Statistical mechanics of polymers (82D60)

Abstract: The conditions of the chromosomes inside the nucleus in the Rabl configuration have been modelled as self-avoiding polymer chains under restraining conditions. To ensure that the chromosomes remain stretched out and lined up, we fixed their end points to two opposing walls. The numbers of segments $N$, the distances $d_1$ and $d_2$ between the fixpoints, and the wall-to-wall distance $z$ (as measured in segment lengths) determine an approximate value for the Kuhn segment length $k_l$. We have simulated the movement of the chromosomes using molecular dynamics to obtain the expected distance distribution between the genetic loci in the absence of further attractive or repulsive forces. A comparison to biological experiments on extit{Drosophila Melanogaster} yields information on the parameters for our model. With the correct parameters it is possible to draw conclusions on the strength and range of the attraction that leads to pairing.

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Cites work

• On the Fourier-Algebra of a Locally Compact Amenable Group

Cited in

(2)

• Homology searching and interlocking of chromosomes: Analytic modeling versus computer simulation
• Hierarchical cooperativity mediated by chromatin remodeling; the model of the MMTV transcription regulation

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