Models of Drosophila nuclei developed by Tolokh <i>et al</i>., 2023 [13].

<p>Four possible, experimentally observed [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0326927#pone.0326927.ref012" target="_blank">12</a>], different mutual arrangements (topologies) of the interface chromosomes (chromosome arms 2L, 2R...

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Main Author:	Samira Mali (8897903) (author)
Other Authors:	Igor S. Tolokh (1314408) (author), Erik Cross (21656212) (author), Alexey V. Onufriev (430594) (author)
Published:	2025
Subjects:	Biophysics Genetics Biotechnology Cancer Hematology Plant Biology Biological Sciences not elsewhere classified Chemical Sciences not elsewhere classified nuclear lamins leads significant differences arise relatively subtle differences approximately 14 kb increased structural heterogeneity given genomic separation genomic tad size chromatin structure might take experimental hi interphase x chromosome quantifying conformational heterogeneity larger genomic distances use bulk hi necessarily limited single div >< p chromatin models examined beyond 100 kb 3d genome organization conformational heterogeneity </ increasing model resolution 3d chromatin conformations conformational heterogeneity interphase chromatin bulk hi chromatin models major differences 2 kb genomic separations genomic distance cell heterogeneity models constructed cell hi work show third relies strongest near standard deviation single cells similar trend resolution limit potential implication modeling approaches model resolution loci distances little effect h .</ facilitate comparison ensemble distribution different resolutions damid data computational approach
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Summary:	<p>Four possible, experimentally observed [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0326927#pone.0326927.ref012" target="_blank">12</a>], different mutual arrangements (topologies) of the interface chromosomes (chromosome arms 2L, 2R, 3L, 3R, chromosomes X and 4) and three slightly different sizes (<i>d</i><sub><i>N</i></sub>) of the model nuclei are taken into account. 18 model nuclei (single cell nuclei) were simulated using Langevin dynamics: the generated trajectories of the interface chromatin time evolution correspond to approximately 11 hours of biological time. The movie <a href="https://github.com/Onufriev-Lab/hi-c_model_validation/blob/main/ChrX_TRANS_X3S_1min_Droso_Interphase.mp4" target="_blank">https://github.com/Onufriev-Lab/hi-c_model_validation/blob/main/ChrX_TRANS_X3S_1min_Droso_Interphase.mp4</a> illustrates the time evolution of X chromosome in one of these models.</p>

Models of Drosophila nuclei developed by Tolokh <i>et al</i>., 2023 [13].

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