The population-averaged contact maps generated by the chromosome conformation capture technique provide important information about the average frequency of contact between pairs of chromatin loci as a function of the genetic distance between them. However, these datasets do not tell us anything about the joint statistics of simultaneous contacts between genomic loci in individual cells. This kind of statistical information can be extracted using the single-cell Hi-C method, which is capable of detecting a large fraction of simultaneous contacts within a single cell, as well as through modern methods of fluorescent labeling and super-resolution imaging. Motivated by the prospect of the imminent availability of relevant experimental data, in this work, we theoretically model the joint statistics of pairs of contacts located along a line perpendicular to the main diagonal of the single-cell contact map. The analysis is performed within the framework of an ideal polymer model with quenched disorder of random loops, which, as previous studies have shown, allows us to take into account the influence of the loop extrusion process on the conformational properties of interphase chromatin.
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21 August 2024
Research Article|
August 16 2024
Effect of active loop extrusion on the two-contact correlations in the interphase chromosome Available to Purchase
Special Collection:
Chromatin Structure and Dynamics: Recent Advancements
Dmitry Starkov
;
Dmitry Starkov
(Formal analysis, Investigation, Software, Visualization, Writing – original draft, Writing – review & editing)
1
Landau Institute for Theoretical Physics, Russian Academy of Sciences
, 1-A Akademika Semenova Ave., 142432 Chernogolovka, Russia
2
Skolkovo Institute of Science and Technology
, 121205 Moscow, Russia
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Sergey Belan
Sergey Belan
a)
(Conceptualization, Formal analysis, Funding acquisition, Investigation, Methodology, Project administration, Supervision, Writing – original draft, Writing – review & editing)
1
Landau Institute for Theoretical Physics, Russian Academy of Sciences
, 1-A Akademika Semenova Ave., 142432 Chernogolovka, Russia
3
Faculty of Physics, National Research University Higher School of Economics
, Myasnitskaya 20, 101000 Moscow, Russia
a)Author to whom correspondence should be addressed: [email protected]
Search for other works by this author on:
Dmitry Starkov
1,2
Sergey Belan
1,3,a)
1
Landau Institute for Theoretical Physics, Russian Academy of Sciences
, 1-A Akademika Semenova Ave., 142432 Chernogolovka, Russia
2
Skolkovo Institute of Science and Technology
, 121205 Moscow, Russia
3
Faculty of Physics, National Research University Higher School of Economics
, Myasnitskaya 20, 101000 Moscow, Russia
a)Author to whom correspondence should be addressed: [email protected]
J. Chem. Phys. 161, 074903 (2024)
Article history
Received:
June 04 2024
Accepted:
August 01 2024
Citation
Dmitry Starkov, Sergey Belan; Effect of active loop extrusion on the two-contact correlations in the interphase chromosome. J. Chem. Phys. 21 August 2024; 161 (7): 074903. https://doi.org/10.1063/5.0221933
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