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Troy Singletary

Publications and source records attributed to Troy Singletary.

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A bilayer cellular Potts model of epithelial docking

Fusion of two epithelial cell sheets brought together in a bilayer configuration is a common step in animal morphogenesis, yet, in contrast to other epithelial fusion processes such as wound healing in a monolayer of cells, it has not been a strong focus of modeling efforts. Here we consider a preliminary stage of bilayer fusion, recently termed "docking." In multiple instances of docking that span apical and basal varieties, cells appear to have a tendency to remodel so as to co-localize their bilateral junctions (match their edges) across the bilayer. Motivated by this observation, we introduce a bilayer cellular Potts model that couples two standard 2D area- and perimeter-elasticity models via short-range, out-of-plane interactions between cell edges. The new coupling involves a single adjustable parameter that minimally models the combined effect of dynamic cytoskeletal protrusions, cadherins, and other potential edge-associated adhesion molecules. Our model predicts that bilayer edge matching is maximized when the two monolayers are in their fluid-like regimes (average cell shape index greater than 4.6 in our implementation), and when the bilayer coupling strength strikes a balance between in-plane and out-of-plane energy scales. At higher coupling strengths, the system tends to get stuck in metastable states with sub-optimal edge matching. Exploration of the mechanisms of edge matching reveals that pairs and quadruplets of coordinated T1 transitions play a particularly important role. We also find numerous examples of emergent features we term "domain walls" - branching or unbranching curves that cross no matched edges, but that separate regions of nearly complete matching. These domain walls can be both system spanning and long lived. Finally, we extend our model to crudely account for bending of the two sheets, and study the distributions of docking front speeds that result.

physics.bio-ph

Molecular dynamics and continuum analyses of the electrokinetic zeta potential in nanostructured slit channels

This work presents a theoretical and numerical study of electrokinetic flow and the zeta potential for the case of slit channels with nanoscale roughness of dimensions comparable to the Debye length, by employing molecular dynamics simulations and continuum-level analyses. A simple analytical model for considering the effects of the surface roughness is proposed by employing matched asymptotic solutions for the charge density and fluid flow field, and matching conditions that satisfy electroneutrality and the Onsager reciprocal relation between the electroosmotic flow rate and streaming current. The proposed analytical model quantitatively accounts for results from molecular dynamics simulations that consider the presence of ion solvation shells and surface hydration layers. Our analysis indicates that a simultaneous knowledge of the electroosmotic and pressure-driven flow rate or streaming current can be instrumental to determine unambiguously the zeta potential and the characteristic surface roughness height.

physics.flu-dyn