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

DOI10.1142/S0129183106009400zbMATH Open1107.82433arXivq-bio/0511008OpenAlexW2084107484MaRDI QIDQ5481834FDOQ5481834

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)

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.

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

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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)

Cites Work

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

Cited In (2)

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

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