Browse
Submit Data
Databases
API
Help

Dataset Information

16 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Cross-stream migration of active particles.

ABSTRACT: For natural microswimmers, the interplay of swimming activity and external flow can promote robust directed motion, for example, propulsion against (upstream rheotaxis) or perpendicular to the direction of flow. These effects are generally attributed to their complex body shapes and flagellar beat patterns. Using catalytic Janus particles as a model experimental system, we report on a strong directional response that occurs for spherical active particles in a channel flow. The particles align their propulsion axes to be nearly perpendicular to both the direction of flow and the normal vector of a nearby bounding surface. We develop a deterministic theoretical model of spherical microswimmers near a planar wall that captures the experimental observations. We show how the directional response emerges from the interplay of shear flow and near-surface swimming activity. Finally, adding the effect of thermal noise, we obtain probability distributions for the swimmer orientation that semiquantitatively agree with the experimental distributions.

SUBMITTER: Katuri J

PROVIDER: S-EPMC5787385 | biostudies-literature | 2018 Jan

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Cross-stream migration of active particles.

Katuri Jaideep J Uspal William E WE Simmchen Juliane J Miguel-López Albert A Sánchez Samuel S

Science advances 20180126 1

For natural microswimmers, the interplay of swimming activity and external flow can promote robust directed motion, for example, propulsion against (upstream rheotaxis) or perpendicular to the direction of flow. These effects are generally attributed to their complex body shapes and flagellar beat patterns. Using catalytic Janus particles as a model experimental system, we report on a strong directional response that occurs for spherical active particles in a channel flow. The particles align th ...[more]

PMID: 29387790

Similar Datasets

Two Stream Active Query Suggestion for Active Learning in Connectomics.

Project description:For large-scale vision tasks in biomedical images, the labeled data is often limited to train effective deep models. Active learning is a common solution, where a query suggestion method selects representative unlabeled samples for annotation, and the new labels are used to improve the base model. However, most query suggestion models optimize their learnable parameters only on the limited labeled data and consequently become less effective for the more challenging unlabeled data. To tackle this, we propose a two-stream active query suggestion approach. In addition to the supervised feature extractor, we introduce an unsupervised one optimized on all raw images to capture diverse image features, which can later be improved by fine-tuning on new labels. As a use case, we build an end-to-end active learning framework with our query suggestion method for 3D synapse detection and mitochondria segmentation in connectomics. With the framework, we curate, to our best knowledge, the largest connectomics dataset with dense synapses and mitochondria annotation. On this new dataset, our method outperforms previous state-of-the-art methods by 3.1% for synapse and 3.8% for mitochondria in terms of region-of-interest proposal accuracy. We also apply our method to image classification, where it outperforms previous approaches on CIFAR-10 under the same limited annotation budget. The project page is https://zudi-lin.github.io/projects/#two_stream_active.

| S-EPMC7746018 | biostudies-literature

Dynamics of active subglacial lakes in Recovery Ice Stream.

Project description:Recovery Ice Stream has a substantial number of active subglacial lakes that are observed, with satellite altimetry, to grow and drain over multiple years. These lakes store and release water that could be important for controlling the velocity of the ice stream. We apply a subglacial hydrology model to analyze lake growth and drainage characteristics together with the simultaneous development of the ice stream hydrological network. Our outputs produce a good match between modeled lake location and those identified using satellite altimetry for many of the lakes. The modeled subglacial system demonstrates development of pressure waves that initiate at the ice stream neck and transit to within 100 km of the terminus. These waves alter the hydraulic potential of the ice stream and encourage growth and drainage of the subglacial lakes. Lake drainage can cause large R-channels to develop between basal overdeepenings that persist for multiple years. The pressure waves, along with lake growth and drainage rates, do not identically repeat over multiple years, due to basal network development. This suggests that the subglacial hydrology of Recovery Ice Stream is influenced by regional drainage development on the scale of hundreds of kilometers rather than local conditions over tens of kilometers.

| S-EPMC7323638 | biostudies-literature

Active particles bound by information flows.

Project description:Self-organization is the generation of order out of local interactions. It is deeply connected to many fields of science from physics, chemistry to biology, all based on physical interactions. The emergence of collective animal behavior is the result of self-organization processes as well, though they involve abstract interactions arising from sensory inputs, information processing, storage, and feedback. Resulting collective behaviors are found, for example, in crowds of people, flocks of birds, and swarms of bacteria. Here we introduce interactions between active microparticles which are based on the information about other particle positions. A real-time feedback of multiple active particle positions is the information source for the propulsion direction of these particles. The emerging structures require continuous information flows. They reveal frustrated geometries due to confinement to two dimensions and internal dynamical degrees of freedom that are reminiscent of physically bound systems, though they exist only as nonequilibrium structures.

| S-EPMC6154969 | biostudies-literature

Velocity distribution in active particles systems.

Project description:We derive an analytic expression for the distribution of velocities of multiple interacting active particles which we test by numerical simulations. In clear contrast with equilibrium we find that the velocities are coupled to positions. Our model shows that, even for two particles only, the individual velocities display a variance depending on the interparticle separation and the emergence of correlations between the velocities of the particles. When considering systems composed of many particles we find an analytic expression connecting the overall velocity variance to density, at the mean-field level, and to the pair distribution function valid in the limit of small noise correlation times. Finally we discuss the intriguing analogies and main differences between our effective free energy functional and the theoretical scenario proposed so far for phase-separating active particles.

| S-EPMC4802341 | biostudies-literature

Active Brownian particles and run-and-tumble particles separate inside a maze.

Project description:A diverse range of natural and artificial self-propelled particles are known and are used nowadays. Among them, active Brownian particles (ABPs) and run-and-tumble particles (RTPs) are two important classes. We numerically study non-interacting ABPs and RTPs strongly confined to different maze geometries in two dimensions. We demonstrate that by means of geometrical confinement alone, ABPs are separable from RTPs. By investigating Matryoshka-like mazes with nested shells, we show that a circular maze has the best filtration efficiency. Results on the mean first-passage time reveal that ABPs escape faster from the center of the maze, while RTPs reach the center from the rim more easily. According to our simulations and a rate theory, which we developed, ABPs in steady state accumulate in the outermost region of the Matryoshka-like mazes, while RTPs occupy all locations within the maze with nearly equal probability. These results suggest a novel technique for separating different types of self-propelled particles by designing appropriate confining geometries without using chemical or biological agents.

| S-EPMC5120314 | biostudies-literature

Dynamics of Active Brownian Particles in Plasma.

Project description:Experimental data on the active Brownian motion of single particles in the RF (radio-frequency) discharge plasma under the influence of thermophoretic force, induced by laser radiation, depending on the material and type of surface of the particle, are presented. Unlike passive Brownian particles, active Brownian particles, also known as micro-swimmers, move directionally. It was shown that different dust particles in gas discharge plasma can convert the energy of a surrounding medium (laser radiation) into the kinetic energy of motion. The movement of the active particle is a superposition of chaotic motion and self-propulsion.

| S-EPMC7866026 | biostudies-literature

KCa3.1 modulates neuroblast migration along the rostral migratory stream (RMS) in vivo.

Project description:From the subventricular zone (SVZ), neuronal precursor cells (NPCs), called neuroblasts, migrate through the rostral migratory stream (RMS) to become interneurons in the olfactory bulb (OB). Ion channels regulate neuronal migration during development, yet their role in migration through the adult RMS is unknown. To address this question, we utilized Nestin-CreER(T2)/R26R-YFP mice to fluorescently label neuroblasts in the adult. Patch-clamp recordings from neuroblasts reveal K(+) currents that are sensitive to intracellular Ca(2+) levels and blocked by clotrimazole and TRAM-34, inhibitors of intermediate conductance Ca(2+)-activated K(+) (KCa3.1) channels. Immunolabeling and electrophysiology show KCa3.1 expression restricted to neuroblasts in the SVZ and RMS, but absent in OB neurons. Time-lapse confocal microscopy in situ showed inhibiting KCa3.1 prolonged the stationary phase of neuroblasts' saltatory migration, reducing migration speed by over 50%. Both migration and KCa3.1 currents could also be inhibited by blocking Ca(2+) influx via transient receptor potential (TRP) channels, which, together with positive immunostaining for transient receptor potential canonical 1 (TRPC1), suggest that TRP channels are an important Ca(2+) source modulating KCa3.1 activity. Finally, injecting TRAM-34 into Nestin-CreER(T2)/R26R-YFP mice significantly reduced the number of neuroblasts that reached the OB, suggesting an important role for KCa3.1 in vivo. These studies describe a previously unrecognized protein in migration of adult NPCs.

| S-EPMC4128704 | biostudies-literature

Neuronal migration in the murine rostral migratory stream requires serum response factor.

Project description:The central nervous system is fundamentally dependent on guided cell migration, both during development and in adulthood. We report an absolute requirement of the transcription factor serum response factor (SRF) for neuronal migration in the mouse forebrain. Conditional, late-prenatal deletion of Srf causes neurons to accumulate ectopically at the subventricular zone (SVZ), a prime neurogenic region in the brain. SRF-deficient cells of the SVZ exhibit impaired tangential chain migration along the rostral migratory stream into the olfactory bulb. SVZ explants display retarded chain migration in vitro. Regarding target genes, SRF deficiency impairs expression of the beta-actin and gelsolin genes, accompanied by reduced cytoskeletal actin fiber density. At the posttranslational level, cofilin, a key regulator of actin dynamics, displays dramatically elevated inhibitory phosphorylation at Ser-3. Our studies indicate that SRF-controlled gene expression directs both the structure and dynamics of the actin microfilament, thereby determining cell-autonomous neuronal migration.

| S-EPMC1087932 | biostudies-literature

Multidimensional stationary probability distribution for interacting active particles.

Project description:We derive the stationary probability distribution for a non-equilibrium system composed by an arbitrary number of degrees of freedom that are subject to Gaussian colored noise and a conservative potential. This is based on a multidimensional version of the Unified Colored Noise Approximation. By comparing theory with numerical simulations we demonstrate that the theoretical probability density quantitatively describes the accumulation of active particles around repulsive obstacles. In particular, for two particles with repulsive interactions, the probability of close contact decreases when one of the two particle is pinned. Moreover, in the case of isotropic confining potentials, the radial density profile shows a non trivial scaling with radius. Finally we show that the theory well approximates the "pressure" generated by the active particles allowing to derive an equation of state for a system of non-interacting colored noise-driven particles.

| S-EPMC4448265 | biostudies-literature

Escape dynamics of active particles in multistable potentials.

Project description:Rare transitions between long-lived metastable states underlie a great variety of physical, chemical and biological processes. Our quantitative understanding of reactive mechanisms has been driven forward by the insights of transition state theory and in particular by Kramers' dynamical framework. Its predictions, however, do not apply to systems that feature non-conservative forces or correlated noise histories. An important class of such systems are active particles, prominent in both biology and nanotechnology. Here, we study the active escape dynamics of a silica nanoparticle trapped in a bistable potential. We introduce activity by applying an engineered stochastic force that emulates self-propulsion. Our experiments, supported by a theoretical analysis, reveal the existence of an optimal correlation time that maximises the transition rate. We discuss the origins of this active turnover, reminiscent of the much celebrated Kramers turnover. Our work establishes a versatile experimental platform to study single particle dynamics in non-equilibrium settings.

| S-EPMC8079420 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data