scholarly journals A space-jump derivation for non-local models of cell-cell adhesion and non-local chemotaxis

2016 ◽  
Author(s):  
Andreas Buttenschön ◽  
Thomas Hillen ◽  
Alf Gerisch ◽  
Kevin J. Painter

AbstractCellular adhesion provides one of the fundamental forms of biological interaction between cells and their surroundings, yet the continuum modelling of cellular adhesion has remained mathematically challenging. In 2006, Armstrong et al. proposed a mathematical model in the form of an integro-partial differential equation. Although successful in applications, a derivation from an underlying stochastic random walk has remained elusive. In this work we develop a framework by which non-local models can be derived from a space-jump process. We show how the notions of motility and a cell polarization vector can be naturally included. With this derivation we are able to include microscopic biological properties into the model. We show that particular choices yield the original Armstrong model, while others lead to more general models, including a doubly non-local adhesion model and non-local chemotaxis models. Finally, we use random walk simulations to confirm that the corresponding continuum model represents the mean field behaviour of the stochastic random walk.

Author(s):  
MARTIN BURGER ◽  
JAN-FREDERIK PIETSCHMANN ◽  
HELENE RANETBAUER ◽  
CHRISTIAN SCHMEISER ◽  
MARIE-THERESE WOLFRAM

In this paper, we derive and analyse mean-field models for the dynamics of groups of individuals undergoing a random walk. The random motion of individuals is only influenced by the perceived densities of the different groups present as well as the available space. All individuals have the tendency to stay within their own group and avoid the others. These interactions lead to the formation of aggregates in case of a single species and to segregation in the case of multiple species. We derive two different mean-field models, which are based on these interactions and weigh local and non-local effects differently. We discuss existence and stability properties of solutions for both models and illustrate the rich dynamics with numerical simulations.


2021 ◽  
Vol 12 (1) ◽  
Author(s):  
Sergey V. Ulianov ◽  
Vlada V. Zakharova ◽  
Aleksandra A. Galitsyna ◽  
Pavel I. Kos ◽  
Kirill E. Polovnikov ◽  
...  

AbstractMammalian and Drosophila genomes are partitioned into topologically associating domains (TADs). Although this partitioning has been reported to be functionally relevant, it is unclear whether TADs represent true physical units located at the same genomic positions in each cell nucleus or emerge as an average of numerous alternative chromatin folding patterns in a cell population. Here, we use a single-nucleus Hi-C technique to construct high-resolution Hi-C maps in individual Drosophila genomes. These maps demonstrate chromatin compartmentalization at the megabase scale and partitioning of the genome into non-hierarchical TADs at the scale of 100 kb, which closely resembles the TAD profile in the bulk in situ Hi-C data. Over 40% of TAD boundaries are conserved between individual nuclei and possess a high level of active epigenetic marks. Polymer simulations demonstrate that chromatin folding is best described by the random walk model within TADs and is most suitably approximated by a crumpled globule build of Gaussian blobs at longer distances. We observe prominent cell-to-cell variability in the long-range contacts between either active genome loci or between Polycomb-bound regions, suggesting an important contribution of stochastic processes to the formation of the Drosophila 3D genome.


2004 ◽  
Vol 98 (4) ◽  
pp. 345-363 ◽  
Author(s):  
Ashley P. Willis ◽  
Anvar Shukurov ◽  
Andrew M. Soward ◽  
Dmitry Sokoloff

2020 ◽  
pp. 106-158
Author(s):  
Giuseppe Mussardo

Chapter 3 discusses the approximation schemes used to approach lattice statistical models that are not exactly solvable. In addition to the mean field approximation, it also considers the Bethe–Peierls approach to the Ising model. Moreover, there is a thorough discussion of the Gaussian model and its spherical version, both of which are two important systems with several points of interest. A chapter appendix provides a detailed analysis of the random walk on different lattices: apart from the importance of the subject on its own, it explains how the random walk is responsible for the critical properties of the spherical model.


2002 ◽  
Vol 30 (6) ◽  
pp. 537-545 ◽  
Author(s):  
Reiner Lammers ◽  
Christina Giesert ◽  
Frank Grünebach ◽  
Anke Marxer ◽  
Wichard Vogel ◽  
...  

2015 ◽  
Vol 25 (6) ◽  
pp. 3139-3161
Author(s):  
Idan Perl ◽  
Arnab Sen ◽  
Ariel Yadin
Keyword(s):  

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