PubMed Health⌕ Search

Biomedical subjects

Troy Shinbrot

Publications and source records attributed to Troy Shinbrot.

14 recordsLinked to original sources
PubMed2006

Simulated morphogenesis of developmental folds due to proliferative pressure.

We present a simulation that models individual cells as spherical particles that can migrate, interact, divide and differentiate. We simulate the evolution of a progenitor layer of cells that reproduce, leading either to more progenitors or to differentiated daughters. We find that this simplified model produces spontaneous folds whose lengths depend linearly on the ratio of rates of production of progenitors to differentiated daughters. We also find that folds grow approximately exponentially in time, and that larger folds can be placed via patterning events that perturb the positions of selected progenitor cells early in the developmental process.

Animals↗
PubMed2006

Triboelectrification and razorbacks: geophysical patterns produced in dry grains.

Electrostatic interactions between particles can dramatically affect granular flows, creating industrial safety and handling problems [K. N. Palmer, (Chapman and Hall, London, 1973), pp. 388-389]. We present experimental data demonstrating that charging of grains can also cause spontaneous self-assembly that may generate lasting geological patterns under arid conditions. Paradoxically, we find that grains that tribocharge enough to produce small explosions, ejecting grains meters into the air, leave little net charge on grains. Rather, grains charge into strongly heterogeneous polar clusters. These assemble into stereotyped residual structures that resemble geological features, for example, razorbacks observed on Mars ["The Razorback Mystery," July 16, 2004, http://www.jpl.nasa.gov/missions/mer/images.cfm?id=701].

Particle Size↗
PubMed2005

Mixing of non-Newtonian fluids in steadily forced systems.

We investigate mixing in a viscoelastic and shear-thinning fluid-a very common combination in polymers and suspensions. We find that competition between elastic and viscous forces generates self-similar mixing, lobe transport, and other characteristics of chaos. The mechanism by which chaos is produced is evaluated both in experiments and in a simple model. We find that chaotic flow is generated by spontaneous oscillations, the magnitude and frequency of which govern the extent of chaos and mixing.

Body Fluids↗
PubMed2005

Deterministic and stochastic elements of axonal guidance.

An enormous literature has been developed on investigations of the growth and guidance of axons during development and after injury. In this review, we provide a guide to this literature as a resource for biomedical investigators. We first review briefly the molecular biology that is known to regulate migration of the growth cone and branching of axonal arbors. We then outline some important fundamental considerations that are important to the modeling of the phenomenology of these guidance effects and of what is known of their underlying internal mechanisms. We conclude by providing some thoughts on the outlook for future biomedical modeling in the field.

Actins↗
PubMed2004

A Taylor vortex analogy in granular flows.

Fluids sheared between concentric rotating cylinders undergo a series of three-dimensional instabilities. Since Taylor's archetypal 1923 study, these have proved pivotal to understanding how fluid flows become unstable and eventually undergo transitions to chaotic or turbulent states. In contrast, predicting the dynamics of granular systems--from nano-sized particles to debris flows--is far less reliable. Under shear these materials resemble fluids, but solid-like responses, non-equilibrium structures and segregation patterns develop unexpectedly. As a result, the analysis of geophysical events and the performance of largely empirical particle technologies might suffer. Here, using gas fluidization to overcome jamming, we show experimentally that granular materials develop vortices consistent with the primary Taylor instability in fluids. However, the vortices observed in our fluidized granular bed are unlike those in fluids in that they are accompanied by novel mixing-segregation transitions. The vortices seem to alleviate increased strain by spawning new vortices, directly modifying the scale of kinetic interactions. Our observations provide insights into the mechanisms of shear transmission by particles and their consequent convective mixing.

Journal Article↗
PubMed2004

Growth cone pathfinding: a competition between deterministic and stochastic events.

BACKGROUND: Growth cone migratory patterns show evidence of both deterministic and stochastic search modes. RESULTS: We quantitatively examine how these two different migration modes affect the growth cone's pathfinding response, by simulating growth cone contact with a repulsive cue and measuring the resultant turn angle. We develop a dimensionless number, we call the determinism ratio Psi, to define the ratio of deterministic to stochastic influences driving the growth cone's migration in response to an external guidance cue. We find that the growth cone can exhibit three distinct types of turning behaviors depending on the magnitude of Psi. CONCLUSIONS: We conclude, within the context of these in silico studies, that only when deterministic and stochastic migration factors are in balance (i.e. Psi ~ 1) can the growth cone respond constructively to guidance cues.

Algorithms↗
PubMed2004

Periodic knolls and valleys: coexistence of solid and liquid states in granular suspensions.

We report the spontaneous emergence of a doubly periodic train of sedimented knolls in a dense suspension. These solidified knolls rise out of, and coexist alongside, a sea of freely flowing liquid in a slowly rotating horizontal bottle. We apply a variable viscosity model that permits simultaneous analysis of fluidlike and solidlike behaviors that are ubiquitous in a variety of sedimenting flows. The model generates qualitative agreement with experiments, and produces new insights into mechanisms by which sedimented structures form.

Journal Article↗
PubMed2004

Dry granular flows can generate surface features resembling those seen in Martian gullies.

Over the past decade or more, contradictory evidence of Martian climate, indicating that surface temperatures seldom if ever approach the melting point of water at midlatitudes, and geomorphic features, consistent with liquid flows at these same latitudes, have proven difficult to reconcile. In this article, we demonstrate that several features of liquid-erosional flows can be produced by dry granular materials when individual particle settling is slower than characteristic debris flow speeds. Since the gravitational acceleration on Mars is about one-third that on Earth, and since particle settling speeds scale with gravity, we propose that some (although perhaps not all) Martian geomorphological features attributed to liquid flows may in fact be associated with dry granular flows in the presence of reduced gravity.

Journal Article↗
PubMed2004

V-blender segregation patterns for free-flowing materials: effects of blender capacity and fill level.

Stable segregation patterns are shown to form in V-blenders over a wide range of vessel capacities, fill levels, and rotation rates. Slight changes in either rotation rate or fill level induce changes in pattern formation. Trajectory segregation in two regions of the flow, accumulating over many flow periods, drives segregation pattern formation. Scaling criteria derived to relate particle velocities to vessel size and rotation rate in rotating cylinders successfully predict the rotation rate for the transition between patterns across V-blenders of 0.8-26.5 quart total capacity. This agreement suggests that pattern formation is governed by the magnitude of particle velocities. Regardless of vessel size, when particle velocities at specific regions of the blender are below a certain value, one particular pattern appears, and when they increase beyond that speed (i.e. by changing the rotation rate or the vessel size), a different pattern emerges. A scaling relation between segregation pattern formation and blender fill level was not identified because the complex flow patterns in the V-blender (the length of the flowing layer and the mixture center of mass relative to the blender are constantly oscillating) preclude the determination of a relationship between blender fill level and particle velocities.

Chemical Phenomena↗
PubMed2003

Free surface waves in wall-bounded granular flows.

We report free-surface waves in granular flows near boundaries in an inclined chute. The chevron-shaped traveling waves spontaneously develop at inclinations close to the angle of repose for both steady and accelerating flows. Two distinct regimes are characterized by internal angle and frequency variations. Experimental measurements indicate that subsurface circulation driven by velocity gradients near frictional walls plays a central role in the pattern formation mechanism, suggesting that wave generation is controlled by the granular analog of a fluid boundary layer.

Journal Article↗
PubMed2002

Shear instabilities in granular flows.

Unstable waves have been long studied in fluid shear layers. These waves affect transport in the atmosphere and oceans, in addition to slipstream stability behind ships, aeroplanes and heat-transfer devices. Corresponding instabilities in granular flows have not been previously documented, despite the importance of these flows in geophysical and industrial systems. Here we report that breaking waves can form at the interface between two streams of identical grains flowing on an inclined plane downstream of a splitter plate. Changes in either the shear rate or the angle of incline cause such waves to appear abruptly. We analyse a granular flow model that agrees qualitatively with our experimental data; the model suggests that the waves result from competition between shear and extensional strains in the flowing granular bed. We propose a dimensionless shear number that governs the transition between steady and wavy flows.

Journal Article↗
PubMed1999

Chaotic granular mixing.

Several models for convective mixing of coarse, freely flowing in granular tumblers have been proposed over the past decade. Powders of practical interest, by contrast, are frequently fine and cohesive, and cannot be analyzed with these models. Moreover, even in the freely flowing regime, mixing transverse to the dominant, convective, direction is typically slow and inefficient. In this paper, we examine two chaotic mixing mechanisms, the first of which can be intentionally applied to increase transverse mixing rates severalfold, with new prospects for further improvements in three-dimensional mixing through judicious process design. The second mechanism occurs spontaneously in fine grains, resulting in mixing rates overwhelmingly exceeding what would be possible in freely flowing grains. Finally, we show that the same chaotic mixing mechanisms seen in simple drum mixers are also found to be at work in more complex blender configurations widely used in batch industrial operations. (c) 1999 American Institute of Physics.

Journal Article↗