arXiv subjects

Siavash Monfared

Publications and source records attributed to Siavash Monfared.

4 recordsLinked to original sources

arXiv2025

Multi-phase-field Models of Biological Tissues

The development of complex multicellular organisms from a single parent cell is a highly orchestrated process that cells conduct collectively without central guidance, creating intricate dynamic patterns essential for development and regeneration. Despite significant advances in imaging spatiotemporal dynamics of cell collectives and mechanical characterization techniques, the role of physical forces in biological functions remains poorly understood. Physics-based models are crucial in complementing experiments, providing high-resolution spatiotemporal fields in three dimensions. This review focuses on dense, soft multicellular systems, such as tissues, where mechanical deformation of one cell necessitates the re-organization of neighboring cells. The multi-phase-field model offers a rich physics-based framework to advance our understanding of biological systems and provides a robust playground for non-equilibrium physics of active matter. We discuss the foundational aspects of the multi-phase-field model and their applications in understanding physics of active matter. We also explore the integration of biological physics with experimental data, covering cell migration, heterogeneous cell populations, and confined systems. Finally, we highlight current trends, the importance of multi-phase-field models in biological and physics research, and future challenges.

cond-mat.soft↗

arXiv2022

Stress percolation criticality of glass to fluid transition in active cell layers

Using three-dimensional representation of confluent cell layers, we map the amorphous solid to fluid phase transition in active cell layers onto the two-dimensional (2D) site percolation universality class. Importantly, we unify two distinct, predominant, pathways associated with this transition; namely (i) cell-cell adhesion and (ii) active traction forces. For each pathway, we independently vary the corresponding control parameter and focus on the emergent mechanical stress patterns as the monolayer transitions from a glassy- to a fluid-like state. Through finite-size scaling analyses, our results lead us to establish the glassy- to fluid-like transition as a critical phenomena in terms of stress development in the cell layer and show that the associated criticality belongs to the 2D site percolation universality class. Our findings offer a fresh perspective on solid (glass-like) to fluid phase transition in active cell layers and can bridge our understanding of glassy behaviors in active matter with potential implications in biological processes such as wound healing, development, and cancer progression.

cond-mat.soft↗

arXiv2021

Mechanical basis and topological routes to cell elimination

Cell layers eliminate unwanted cells through the extrusion process, which underlines healthy versus flawed tissue behaviors. Although several biochemical pathways have been identified, the underlying mechanical basis including the forces involved in cellular extrusion remain largely unexplored. Utilizing a phase-field model of a three-dimensional cell layer, we study the interplay of cell extrusion with cell-cell and cell-substrate interactions, in a flat monolayer. Independent tuning of cell-cell versus cell-substrate adhesion forces reveals that extrusion events can be distinctly linked to defects in nematic and hexatic orders associated with cellular arrangements. Specifically, we show that by increasing relative cell-cell adhesion forces the cell monolayer can switch between the collective tendency towards five-fold, hexatic, disclinations relative to half-integer, nematic, defects for extruding a cell. We unify our findings by accessing three-dimensional mechanical stress fields to show that an extrusion event acts as a mechanism to relieve localized stress concentration.

cond-mat.soft↗

arXiv2020

The Effect of Confinement on Capillary Phase Transition In Granular Aggregates

Utilizing a 3D mean-field lattice-gas model, we analyze the effect of confinement on the nature of capillary phase transition in granular aggregates with varying disorder and their inverse porous structures obtained by interchanging particles and pores. Surprisingly, the confinement effects are found to be much less pronounced in granular aggregates as opposed to porous structures. We show that this discrepancy can be understood in terms of the surface-surface correlation length with a connected path through the fluid domain, suggesting that this length captures the true degree of confinement. We also find that the liquid-gas phase transition in these porous materials is of second order nature near capillary critical temperature, which is shown to represent a true critical temperature, i.e. independent of the degree of disorder and the nature of solid matrix, discrete or continuous. The critical exponents estimated here from finite-size scaling analysis suggest that this transition belongs to the 3D random field Ising model universality class as hypothesized by P.G. de Gennes, with the underlying random fields induced by local disorder in fluid-solid interactions.

cond-mat.stat-mech↗