Dynamics of Phenanthrenequinone on Carbon Nano-Onion Surfaces Probed by Quasielastic Neutron Scattering

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anjos, Daniela M; Mamontov, Eugene; Brown, Gilbert M

We used quasielastic neutron scattering (QENS) to study the dynamics of phenanthrenequinone (PQ) on the surface of onion-like carbon (OLC), or so called carbon onions, as a function of surface coverage and temperature. For both the high- and low-coverage samples, we observed two diffusion processes; a faster process and nearly an order of magnitude slower process. On the high-coverage surface, the slow diffusion process is of long-range translational character, whereas the fast diffusion process is spatially localized on the length scale of ~ 4.7 . On the low-coverage surface, both diffusion processes are spatially localized; on the same length scalemore » of ~ 4.7 for the fast diffusion and a somewhat larger length scale for the slow diffusion. Arrhenius temperature dependence is observed except for the long-range diffusion on the high-coverage surface. We attribute the fast diffusion process to the generic localized in-cage dynamics of PQ molecules, and the slow diffusion process to the long-range translational dynamics of PQ molecules, which, depending on the coverage, may be either spatially restricted, or long-range. On the low-coverage surface, uniform surface coverage is not attained, and the PQ molecules experience the effect of spatial constraints on their long-range translational dynamics. Unexpectedly, the dynamics of PQ molecules on OLC as a function of temperature and surface coverage bears qualitative resemblance to the dynamics of water molecules on oxide surfaces, including practically temperature-independent residence times for the low-coverage surface. The dynamics features that we observed may be universal across different classes of surface adsorbates.« less

High-velocity deformation of Al 0.3CoCrFeNi high-entropy alloy: Remarkable resistance to shear failure

DOE PAGES

Li, Z.; Zhao, S.; Diao, H.; ...

2017-02-17

Here, the mechanical behavior of a single phase (fcc) Al 0.3CoCrFeNi high-entropy alloy (HEA) was studied in the low and high strain-rate regimes. The combination of multiple strengthening mechanisms such as solid solution hardening, forest dislocation hardening, as well as mechanical twinning leads to a high work hardening rate, which is significantly larger than that for Al and is retained in the dynamic regime. The resistance to shear localization was studied by dynamically-loading hat-shaped specimens to induce forced shear localization. However, no adiabatic shear band could be observed. It is therefore proposed that the excellent strain hardening ability gives risemore » to remarkable resistance to shear localization, which makes this material an excellent candidate for penetration protection applications such as armors.« less

Magnetic domain wall gratings for magnetization reversal tuning and confined dynamic mode localization.

PubMed

Trützschler, Julia; Sentosun, Kadir; Mozooni, Babak; Mattheis, Roland; McCord, Jeffrey

2016-08-04

High density magnetic domain wall gratings are imprinted in ferromagnetic-antiferromagnetic thin films by local ion irradiation by which alternating head-to-tail-to-head-to-tail and head-to-head-to-tail-to-tail spatially overlapping domain wall networks are formed. Unique magnetic domain processes result from the interaction of anchored domain walls. Non-linear magnetization response is introduced by the laterally distributed magnetic anisotropy phases. The locally varying magnetic charge distribution gives rise to localized and guided magnetization spin-wave modes directly constrained by the narrow domain wall cores. The exchange coupled multiphase material structure leads to unprecedented static and locally modified dynamic magnetic material properties.

Magnetic domain wall gratings for magnetization reversal tuning and confined dynamic mode localization

NASA Astrophysics Data System (ADS)

Trützschler, Julia; Sentosun, Kadir; Mozooni, Babak; Mattheis, Roland; McCord, Jeffrey

2016-08-01

High density magnetic domain wall gratings are imprinted in ferromagnetic-antiferromagnetic thin films by local ion irradiation by which alternating head-to-tail-to-head-to-tail and head-to-head-to-tail-to-tail spatially overlapping domain wall networks are formed. Unique magnetic domain processes result from the interaction of anchored domain walls. Non-linear magnetization response is introduced by the laterally distributed magnetic anisotropy phases. The locally varying magnetic charge distribution gives rise to localized and guided magnetization spin-wave modes directly constrained by the narrow domain wall cores. The exchange coupled multiphase material structure leads to unprecedented static and locally modified dynamic magnetic material properties.

Role of intermediate state in the excited state dynamics of highly efficient TADF molecules

NASA Astrophysics Data System (ADS)

Hosokai, Takuya; Matsuzaki, Hiroyuki; Furube, Akihiro; Tokumaru, Katsumi; Tsutsui, Tetsuo; Nakanotani, Hajime; Yahiro, Masayuki; Adachi, Chihaya

2016-09-01

We hereby report the results of our direct investigation into the excited-state dynamics of thermally activated delayed fluorescence (TADF) molecules in solution using pump-probe transient absorption spectroscopy (TAS). We found that the charge-transfer (CT) state commonly stated for TADF molecules encompasses two forms: localized and delocalized CT states. A highly efficient TADF molecule, 4CzIPN [Uoyama et al., Nature, 492, 234-238 (2012)], showed both the localized and delocalized CT states, while an inefficient TADF molecule, 2CzPN, exhibited only a localized CT state. By analyzing the time profile of triplet species observed in TAS, we propose that the reverse intersystem crossing (RISC) of 4CzIPN occurs via a mutual interaction in multiple energy levels of localized neutral and CT states, and delocalized CT states.

Accounting for Fault Roughness in Pseudo-Dynamic Ground-Motion Simulations

NASA Astrophysics Data System (ADS)

Mai, P. Martin; Galis, Martin; Thingbaijam, Kiran K. S.; Vyas, Jagdish C.; Dunham, Eric M.

2017-09-01

Geological faults comprise large-scale segmentation and small-scale roughness. These multi-scale geometrical complexities determine the dynamics of the earthquake rupture process, and therefore affect the radiated seismic wavefield. In this study, we examine how different parameterizations of fault roughness lead to variability in the rupture evolution and the resulting near-fault ground motions. Rupture incoherence naturally induced by fault roughness generates high-frequency radiation that follows an ω-2 decay in displacement amplitude spectra. Because dynamic rupture simulations are computationally expensive, we test several kinematic source approximations designed to emulate the observed dynamic behavior. When simplifying the rough-fault geometry, we find that perturbations in local moment tensor orientation are important, while perturbations in local source location are not. Thus, a planar fault can be assumed if the local strike, dip, and rake are maintained. We observe that dynamic rake angle variations are anti-correlated with the local dip angles. Testing two parameterizations of dynamically consistent Yoffe-type source-time function, we show that the seismic wavefield of the approximated kinematic ruptures well reproduces the radiated seismic waves of the complete dynamic source process. This finding opens a new avenue for an improved pseudo-dynamic source characterization that captures the effects of fault roughness on earthquake rupture evolution. By including also the correlations between kinematic source parameters, we outline a new pseudo-dynamic rupture modeling approach for broadband ground-motion simulation.

Ultrafast dynamic computed tomography myelography for the precise identification of high-flow cerebrospinal fluid leaks caused by spiculated spinal osteophytes.

PubMed

Thielen, Kent R; Sillery, John C; Morris, Jonathan M; Hoxworth, Joseph M; Diehn, Felix E; Wald, John T; Rosebrock, Richard E; Yu, Lifeng; Luetmer, Patrick H

2015-03-01

Precise localization and understanding of the origin of spontaneous high-flow spinal CSF leaks is required prior to targeted treatment. This study demonstrates the utility of ultrafast dynamic CT myelography for the precise localization of high-flow CSF leaks caused by spiculated spinal osteophytes. This study reports a series of 14 patients with high-flow CSF leaks caused by spiculated spinal osteophytes who underwent ultrafast dynamic CT myelography between March 2009 and December 2010. There were 10 male and 4 female patients, with an average age of 49 years (range 37-74 years). The value of ultrafast dynamic CT myelography in depicting the CSF leak site was qualitatively assessed. In all 14 patients, ultrafast dynamic CT myelography was technically successful at precisely demonstrating the site of the CSF leak, the causative spiculated osteophyte piercing the dura, and the relationship of the implicated osteophyte to adjacent structures. Leak sites included 3 cervical, 11 thoracic, and 0 lumbar levels, with 86% of the leaks occurring from C-5 to T-7. Information obtained from the ultrafast dynamic CT myelogram was considered useful in all treated CSF leaks. Spinal osteophytes piercing the dura are a more frequent cause of high-flow CSF leaks than previously recognized. Ultrafast dynamic CT myelography adds value beyond standard dynamic myelography or digital subtraction myelography in the diagnosis and anatomical characterization of high-flow spinal CSF leaks caused by these osteophytes. This information allows for appropriate planning for percutaneous or surgical treatment.

Spatial synchrony of local populations has increased in association with the recent Northern Hemisphere climate trend.

PubMed

Post, Eric; Forchhammer, Mads C

2004-06-22

According to ecological theory, populations whose dynamics are entrained by environmental correlation face increased extinction risk as environmental conditions become more synchronized spatially. This prediction is highly relevant to the study of ecological consequences of climate change. Recent empirical studies have indicated, for example, that large-scale climate synchronizes trophic interactions and population dynamics over broad spatial scales in freshwater and terrestrial systems. Here, we present an analysis of century-scale, spatially replicated data on local weather and the population dynamics of caribou in Greenland. Our results indicate that spatial autocorrelation in local weather has increased with large-scale climatic warming. This increase in spatial synchrony of environmental conditions has been matched, in turn, by an increase in the spatial synchrony of local caribou populations toward the end of the 20th century. Our results indicate that spatial synchrony in environmental conditions and the populations influenced by them are highly variable through time and can increase with climatic warming. We suggest that if future warming can increase population synchrony, it may also increase extinction risk.

Thermal coefficients of the methyl groups within ubiquitin

PubMed Central

Sabo, T Michael; Bakhtiari, Davood; Walter, Korvin F A; McFeeters, Robert L; Giller, Karin; Becker, Stefan; Griesinger, Christian; Lee, Donghan

2012-01-01

Physiological processes such as protein folding and molecular recognition are intricately linked to their dynamic signature, which is reflected in their thermal coefficient. In addition, the local conformational entropy is directly related to the degrees of freedom, which each residue possesses within its conformational space. Therefore, the temperature dependence of the local conformational entropy may provide insight into understanding how local dynamics may affect the stability of proteins. Here, we analyze the temperature dependence of internal methyl group dynamics derived from the cross-correlated relaxation between dipolar couplings of two CH bonds within ubiquitin. Spanning a temperature range from 275 to 308 K, internal methyl group dynamics tend to increase with increasing temperature, which translates to a general increase in local conformational entropy. With this data measured over multiple temperatures, the thermal coefficient of the methyl group order parameter, the characteristic thermal coefficient, and the local heat capacity were obtained. By analyzing the distribution of methyl group thermal coefficients within ubiquitin, we found that the N-terminal region has relatively high thermostability. These results indicate that methyl groups contribute quite appreciably to the total heat capacity of ubiquitin through the regulation of local conformational entropy. PMID:22334336

Dynamics of Quasi-Electrostatic Whistler waves in Earth's Radiation belts

NASA Astrophysics Data System (ADS)

Goyal, R.; Sharma, R. P.; Gupta, D. N.

2017-12-01

A numerical model is proposed to study the dynamics of high amplitude quasi-electrostatic whistler waves propagating near resonance cone angle and their interaction with finite frequency kinetic Alfvén waves (KAWs) in Earth's radiation belts. The quasi-electrostatic character of whistlers is narrated by dynamics of wave propagating near resonance cone. A high amplitude whistler wave packet is obtained using the present analysis which has also been observed by S/WAVES instrument onboard STEREO. The numerical simulation technique employed to study the dynamics, leads to localization (channelling) of waves as well as turbulent spectrum suggesting the transfer of wave energy over a range of frequencies. The turbulent spectrum also indicates the presence of quasi-electrostatic whistlers and density fluctuations associated with KAW in radiation belts plasma. The ponderomotive force of pump quasi-electrostatic whistlers (high frequency) is used to excite relatively much lower frequency waves (KAWs). The wave localization and steeper spectra could be responsible for particle energization or heating in radiation belts.

Estimating network parameters from combined dynamics of firing rate and irregularity of single neurons.

PubMed

Hamaguchi, Kosuke; Riehle, Alexa; Brunel, Nicolas

2011-01-01

High firing irregularity is a hallmark of cortical neurons in vivo, and modeling studies suggest a balance of excitation and inhibition is necessary to explain this high irregularity. Such a balance must be generated, at least partly, from local interconnected networks of excitatory and inhibitory neurons, but the details of the local network structure are largely unknown. The dynamics of the neural activity depends on the local network structure; this in turn suggests the possibility of estimating network structure from the dynamics of the firing statistics. Here we report a new method to estimate properties of the local cortical network from the instantaneous firing rate and irregularity (CV(2)) under the assumption that recorded neurons are a part of a randomly connected sparse network. The firing irregularity, measured in monkey motor cortex, exhibits two features; many neurons show relatively stable firing irregularity in time and across different task conditions; the time-averaged CV(2) is widely distributed from quasi-regular to irregular (CV(2) = 0.3-1.0). For each recorded neuron, we estimate the three parameters of a local network [balance of local excitation-inhibition, number of recurrent connections per neuron, and excitatory postsynaptic potential (EPSP) size] that best describe the dynamics of the measured firing rates and irregularities. Our analysis shows that optimal parameter sets form a two-dimensional manifold in the three-dimensional parameter space that is confined for most of the neurons to the inhibition-dominated region. High irregularity neurons tend to be more strongly connected to the local network, either in terms of larger EPSP and inhibitory PSP size or larger number of recurrent connections, compared with the low irregularity neurons, for a given excitatory/inhibitory balance. Incorporating either synaptic short-term depression or conductance-based synapses leads many low CV(2) neurons to move to the excitation-dominated region as well as to an increase of EPSP size.

Context-dependent colonization dynamics: Regional reward contagion drives local compression in aquatic beetles.

PubMed

Pintar, Matthew R; Resetarits, William J

2017-09-01

Habitat selection by colonizing organisms is an important factor in determining species abundance and community dynamics at multiple spatial scales. Many organisms select habitat patches based on intrinsic patch quality, but patches exist in complex landscapes linked by dispersal and colonization, forming metapopulations and metacommunities. Perceived patch quality can be influenced by neighbouring patches through spatial contagion, wherein perceived quality of one patch can extend beyond its borders and either increase or decrease the colonization of neighbouring patches and localities. These spatially explicit colonization dynamics can result in habitat compression, wherein more colonists occupy a patch or locality than in the absence of spatial context dependence. Previous work on contagion/compression focused primarily on the role of predators in driving colonization patterns. Our goal was to determine whether resource abundance can drive multi-scale colonization dynamics of aquatic beetles through the processes of contagion and compression in naturally colonized experimental pools. We established two levels (high/low quality) of within-patch resource abundances (leaf litter) using an experimental landscape of mesocosms, and assayed colonization by 35 species of aquatic beetles. Patches were arranged in localities (sets of two patches), which consisted of a combination of two patch-level resource levels in a 2 × 2 factorial design, allowing us to assay colonization at both locality and patch levels. We demonstrate that patterns of species abundance and richness of colonizing aquatic beetles are determined by patch quality and context-dependent processes at multiple spatial scales. Localities that consisted of at least one high-quality patch were colonized at equivalent rates that were higher than localities containing only low-quality patches, displaying regional reward contagion. In localities that consisted of one high- and one low-quality patch, reward contagion produced by higher leaf litter levels resulted in greater abundance of beetles in such localities, which then compressed into the highest quality patches. Our results provide further support for the critical roles of habitat selection and spatial context, particularly the quality of neighbouring habitat patches, in generating patterns of species abundances and community structure across landscapes. © 2017 The Authors. Journal of Animal Ecology © 2017 British Ecological Society.

Non-local means denoising of dynamic PET images.

PubMed

Dutta, Joyita; Leahy, Richard M; Li, Quanzheng

2013-01-01

Dynamic positron emission tomography (PET), which reveals information about both the spatial distribution and temporal kinetics of a radiotracer, enables quantitative interpretation of PET data. Model-based interpretation of dynamic PET images by means of parametric fitting, however, is often a challenging task due to high levels of noise, thus necessitating a denoising step. The objective of this paper is to develop and characterize a denoising framework for dynamic PET based on non-local means (NLM). NLM denoising computes weighted averages of voxel intensities assigning larger weights to voxels that are similar to a given voxel in terms of their local neighborhoods or patches. We introduce three key modifications to tailor the original NLM framework to dynamic PET. Firstly, we derive similarities from less noisy later time points in a typical PET acquisition to denoise the entire time series. Secondly, we use spatiotemporal patches for robust similarity computation. Finally, we use a spatially varying smoothing parameter based on a local variance approximation over each spatiotemporal patch. To assess the performance of our denoising technique, we performed a realistic simulation on a dynamic digital phantom based on the Digimouse atlas. For experimental validation, we denoised [Formula: see text] PET images from a mouse study and a hepatocellular carcinoma patient study. We compared the performance of NLM denoising with four other denoising approaches - Gaussian filtering, PCA, HYPR, and conventional NLM based on spatial patches. The simulation study revealed significant improvement in bias-variance performance achieved using our NLM technique relative to all the other methods. The experimental data analysis revealed that our technique leads to clear improvement in contrast-to-noise ratio in Patlak parametric images generated from denoised preclinical and clinical dynamic images, indicating its ability to preserve image contrast and high intensity details while lowering the background noise variance.

STED Imaging of Golgi Dynamics with Cer-SiR: A Two-Component, Photostable, High-Density Lipid Probe for Live Cells.

PubMed

Erdmann, Roman S; Toomre, Derek; Schepartz, Alanna

2017-01-01

Long time-lapse super-resolution imaging in live cells requires a labeling strategy that combines a bright, photostable fluorophore with a high-density localization probe. Lipids are ideal high-density localization probes, as they are >100 times more abundant than most membrane-bound proteins and simultaneously demark the boundaries of cellular organelles. Here, we describe Cer-SiR, a two-component, high-density lipid probe that is exceptionally photostable. Cer-SiR is generated in cells via a bioorthogonal reaction of two components: a ceramide lipid tagged with trans-cyclooctene (Cer-TCO) and a reactive, photostable Si-rhodamine dye (SiR-Tz). These components assemble within the Golgi apparatus of live cells to form Cer-SiR. Cer-SiR is benign to cellular function, localizes within the Golgi at a high density, and is sufficiently photostable to enable visualization of Golgi structure and dynamics by 3D confocal or long time-lapse STED microscopy.

Discovering Coherent Structures Using Local Causal States

NASA Astrophysics Data System (ADS)

Rupe, Adam; Crutchfield, James P.; Kashinath, Karthik; Prabhat, Mr.

2017-11-01

Coherent structures were introduced in the study of fluid dynamics and were initially defined as regions characterized by high levels of coherent vorticity, i.e. regions where instantaneously space and phase correlated vorticity are high. In a more general spatiotemporal setting, coherent structures can be seen as localized broken symmetries which persist in time. Building off the computational mechanics framework, which integrates tools from computation and information theory to capture pattern and structure in nonlinear dynamical systems, we introduce a theory of coherent structures, in the more general sense. Central to computational mechanics is the causal equivalence relation, and a local spatiotemporal generalization of it is used to construct the local causal states, which are utilized to uncover a system's spatiotemporal symmetries. Coherent structures are then identified as persistent, localized deviations from these symmetries. We illustrate how novel patterns and structures can be discovered in cellular automata and outline the path from them to laminar, transitional and turbulent flows. Funded by Intel through the Big Data Center at LBNL and the IPCC at UC Davis.

A combinatorial framework to quantify peak/pit asymmetries in complex dynamics.

PubMed

Hasson, Uri; Iacovacci, Jacopo; Davis, Ben; Flanagan, Ryan; Tagliazucchi, Enzo; Laufs, Helmut; Lacasa, Lucas

2018-02-23

We explore a combinatorial framework which efficiently quantifies the asymmetries between minima and maxima in local fluctuations of time series. We first showcase its performance by applying it to a battery of synthetic cases. We find rigorous results on some canonical dynamical models (stochastic processes with and without correlations, chaotic processes) complemented by extensive numerical simulations for a range of processes which indicate that the methodology correctly distinguishes different complex dynamics and outperforms state of the art metrics in several cases. Subsequently, we apply this methodology to real-world problems emerging across several disciplines including cases in neurobiology, finance and climate science. We conclude that differences between the statistics of local maxima and local minima in time series are highly informative of the complex underlying dynamics and a graph-theoretic extraction procedure allows to use these features for statistical learning purposes.

PBxplore: a tool to analyze local protein structure and deformability with Protein Blocks

PubMed Central

Craveur, Pierrick; Joseph, Agnel Praveen; Jallu, Vincent

2017-01-01

This paper describes the development and application of a suite of tools, called PBxplore, to analyze the dynamics and deformability of protein structures using Protein Blocks (PBs). Proteins are highly dynamic macromolecules, and a classical way to analyze their inherent flexibility is to perform molecular dynamics simulations. The advantage of using small structural prototypes such as PBs is to give a good approximation of the local structure of the protein backbone. More importantly, by reducing the conformational complexity of protein structures, PBs allow analysis of local protein deformability which cannot be done with other methods and had been used efficiently in different applications. PBxplore is able to process large amounts of data such as those produced by molecular dynamics simulations. It produces frequencies, entropy and information logo outputs as text and graphics. PBxplore is available at https://github.com/pierrepo/PBxplore and is released under the open-source MIT license. PMID:29177113

Local Structures of High-Entropy Alloys (HEAs) on Atomic Scales: An Overview

DOE PAGES

Diao, Haoyan; Santodonato, Louis J.; Tang, Zhi; ...

2015-08-29

The high-entropy alloys (HEAs), containing several elements mixed in equimolar or near-equimolar ratios, have shown exceptional engineering properties. Local structures on atomic level are essential to understand the mechanical behaviors and related mechanisms. In this paper, the local structure and stress on the atomic level are reviewed by the pair-distribution function (PDF) of neutron-diffraction data, ab-initio-molecular-dynamics (AIMD) simulations, and atomic-probe microscopy (APT).

Local-feature analysis for automated coarse-graining of bulk-polymer molecular dynamics simulations.

PubMed

Xue, Y; Ludovice, P J; Grover, M A

2012-12-01

A method for automated coarse-graining of bulk polymers is presented, using the data-mining tool of local feature analysis. Most existing methods for polymer coarse-graining define superatoms based on their covalent bonding topology along the polymer backbone, but here superatoms are defined based only on their correlated motions, as observed in molecular dynamics simulations. Correlated atomic motions are identified in the simulation data using local feature analysis, between atoms in the same or in different polymer chains. Groups of highly correlated atoms constitute the superatoms in the coarse-graining scheme, and the positions of their seed coordinates are then projected forward in time. Based on only the seed positions, local feature analysis enables the full reconstruction of all atomic positions. This reconstruction suggests an iterative scheme to reduce the computation of the simulations to initialize another short molecular dynamic simulation, identify new superatoms, and again project forward in time.

Dynamic fuzzy modeling of storm water infiltration in urban fractured aquifers

USGS Publications Warehouse

Hong, Y.-S.; Rosen, Michael R.; Reeves, R.R.

2002-01-01

In an urban fractured-rock aquifer in the Mt. Eden area of Auckland, New Zealand, disposal of storm water is via "soakholes" drilled directly into the top of the fractured basalt rock. The dynamic response of the groundwater level due to the storm water infiltration shows characteristics of a strongly time-varying system. A dynamic fuzzy modeling approach, which is based on multiple local models that are weighted using fuzzy membership functions, has been developed to identify and predict groundwater level fluctuations caused by storm water infiltration. The dynamic fuzzy model is initialized by the fuzzy clustering algorithm and optimized by the gradient-descent algorithm in order to effectively derive the multiple local models-each of which is associated with a locally valid model that represents the groundwater level state as a response to different intensities of rainfall events. The results have shown that even if the number of fuzzy local models derived is small, the fuzzy modeling approach developed provides good prediction results despite the highly time-varying nature of this urban fractured-rock aquifer system. Further, it allows interpretable representations of the dynamic behavior of the groundwater system due to storm water infiltration.

Local Viscoelastic Properties of Live Cells Investigated Using Dynamic and Quasi-Static Atomic Force Microscopy Methods

PubMed Central

Cartagena, Alexander; Raman, Arvind

2014-01-01

The measurement of viscoelasticity of cells in physiological environments with high spatio-temporal resolution is a key goal in cell mechanobiology. Traditionally only the elastic properties have been measured from quasi-static force-distance curves using the atomic force microscope (AFM). Recently, dynamic AFM-based methods have been proposed to map the local in vitro viscoelastic properties of living cells with nanoscale resolution. However, the differences in viscoelastic properties estimated from such dynamic and traditional quasi-static techniques are poorly understood. In this work we quantitatively reconstruct the local force and dissipation gradients (viscoelasticity) on live fibroblast cells in buffer solutions using Lorentz force excited cantilevers and present a careful comparison between mechanical properties (local stiffness and damping) extracted using dynamic and quasi-static force spectroscopy methods. The results highlight the dependence of measured viscoelastic properties on both the frequency at which the chosen technique operates as well as the interactions with subcellular components beyond certain indentation depth, both of which are responsible for differences between the viscoelasticity property maps acquired using the dynamic AFM method against the quasi-static measurements. PMID:24606928

Enhancement tuning and control for high dynamic range images in multi-scale locally adaptive contrast enhancement algorithms

NASA Astrophysics Data System (ADS)

Cvetkovic, Sascha D.; Schirris, Johan; de With, Peter H. N.

2009-01-01

For real-time imaging in surveillance applications, visibility of details is of primary importance to ensure customer confidence. If we display High Dynamic-Range (HDR) scenes whose contrast spans four or more orders of magnitude on a conventional monitor without additional processing, results are unacceptable. Compression of the dynamic range is therefore a compulsory part of any high-end video processing chain because standard monitors are inherently Low- Dynamic Range (LDR) devices with maximally two orders of display dynamic range. In real-time camera processing, many complex scenes are improved with local contrast enhancements, bringing details to the best possible visibility. In this paper, we show how a multi-scale high-frequency enhancement scheme, in which gain is a non-linear function of the detail energy, can be used for the dynamic range compression of HDR real-time video camera signals. We also show the connection of our enhancement scheme to the processing way of the Human Visual System (HVS). Our algorithm simultaneously controls perceived sharpness, ringing ("halo") artifacts (contrast) and noise, resulting in a good balance between visibility of details and non-disturbance of artifacts. The overall quality enhancement, suitable for both HDR and LDR scenes, is based on a careful selection of the filter types for the multi-band decomposition and a detailed analysis of the signal per frequency band.

Bulk from bi-locals in Thermo field CFT

DOE PAGES

Jevicki, Antal; Yoon, Junggi

2016-02-15

For this research, we study the Large N dynamics of the O(N) field theory in the Thermo field dynamics approach. The question of recovering the high temperature phase and the corresponding O(N) gauging is clarified. Through the associated bi-local representation we discuss the emergent bulk space-time and construction of (Higher spin) fields. In addition, we note the presence of ‘evanescent’ modes in this construction and also the mixing of spins at finite temperature.

Quantum order, entanglement and localization in many-body systems

NASA Astrophysics Data System (ADS)

Khemani, Vedika

The interplay of disorder and interactions can have remarkable effects on the physics of quantum systems. A striking example is provided by the long conjectured--and recently confirmed--phenomenon of many-body localization. Many-body localized (MBL) phases violate foundational assumptions about ergodicity and thermalization in interacting systems, and represent a new frontier for non-equilibrium quantum statistical mechanics. We start with a study of the dynamical response of MBL phases to time-dependent perturbations. We find that that an asymptotically slow, local perturbation induces a highly non-local response, a surprising result for a localized insulator. A complementary calculation in the linear-response regime elucidates the structure of many-body resonances contributing to the dynamics of this phase. We then turn to a study of quantum order in MBL systems. It was shown that localization can allow novel high-temperature phases and phase transitions that are disallowed in equilibrium. We extend this idea of "localization protected order'' to the case of symmetry-protected topological phases and to the elucidation of phase structure in periodically driven Floquet systems. We show that Floquet systems can display nontrivial phases, some of which show a novel form of correlated spatiotemporal order and are absolutely stable to all generic perturbations. The next part of the thesis addresses the role of quantum entanglement, broadly speaking. Remarkably, it was shown that even highly-excited MBL eigenstates have low area-law entanglement. We exploit this feature to develop tensor-network based algorithms for efficiently computing and representing highly-excited MBL eigenstates. We then switch gears from disordered, localized systems and examine the entanglement Hamiltonian and its low energy spectrum from a statistical mechanical lens, particularly focusing on issues of universality and thermalization. We close with two miscellaneous results on topologically ordered phases. The first studies the nonequilibrium "Kibble-Zurek'' dynamics resulting from driving a system through a phase transition from a topologically ordered phase to a trivial one at a finite rate. The second shows that the four-state Potts model on the pyrochlore lattice exhibits a "Coulomb Phase'' characterized by three emergent gauge fields.

The Social Dynamics of Mathematics Coursetaking in High School1

PubMed Central

Frank, Kenneth A.; Muller, Chandra; Schiller, Kathryn S.; Riegle-Crumb, Catherine; Mueller, Anna Strassmann; Crosnoe, Robert; Pearson, Jennifer

2010-01-01

This study examines how high school boys’ and girls’ academic effort, in the form of math coursetaking, is influenced by members of their social contexts. The authors argue that adolescents’ social contexts are defined, in part, by clusters of students (termed “local positions”) who take courses that differentiate them from others. Using course transcript data from the recent Adolescent Health and Academic Achievement Study, the authors employ a new network algorithm to identify local positions in 78 high schools in the National Longitudinal Study of Adolescent Health. Incorporating the local positions into multilevel models of math coursetaking, the authors find that girls are highly responsive to the social norms in their local positions, which contributes to homogeneity within and heterogeneity between local positions. PMID:21031147

Solvation and Evolution Dynamics of an Excess Electron in Supercritical CO2

NASA Astrophysics Data System (ADS)

Wang, Zhiping; Liu, Jinxiang; Zhang, Meng; Cukier, Robert I.; Bu, Yuxiang

2012-05-01

We present an ab initio molecular dynamics simulation of the dynamics of an excess electron solvated in supercritical CO2. The excess electron can exist in three types of states: CO2-core localized, dual-core localized, and diffuse states. All these states undergo continuous state conversions via a combination of long lasting breathing oscillations and core switching, as also characterized by highly cooperative oscillations of the excess electron volume and vertical detachment energy. All of these oscillations exhibit a strong correlation with the electron-impacted bending vibration of the core CO2, and the core-switching is controlled by thermal fluctuations.

Using the virtual brain to reveal the role of oscillations and plasticity in shaping brain's dynamical landscape.

PubMed

Roy, Dipanjan; Sigala, Rodrigo; Breakspear, Michael; McIntosh, Anthony Randal; Jirsa, Viktor K; Deco, Gustavo; Ritter, Petra

2014-12-01

Spontaneous brain activity, that is, activity in the absence of controlled stimulus input or an explicit active task, is topologically organized in multiple functional networks (FNs) maintaining a high degree of coherence. These "resting state networks" are constrained by the underlying anatomical connectivity between brain areas. They are also influenced by the history of task-related activation. The precise rules that link plastic changes and ongoing dynamics of resting-state functional connectivity (rs-FC) remain unclear. Using the framework of the open source neuroinformatics platform "The Virtual Brain," we identify potential computational mechanisms that alter the dynamical landscape, leading to reconfigurations of FNs. Using a spiking neuron model, we first demonstrate that network activity in the absence of plasticity is characterized by irregular oscillations between low-amplitude asynchronous states and high-amplitude synchronous states. We then demonstrate the capability of spike-timing-dependent plasticity (STDP) combined with intrinsic alpha (8-12 Hz) oscillations to efficiently influence learning. Further, we show how alpha-state-dependent STDP alters the local area dynamics from an irregular to a highly periodic alpha-like state. This is an important finding, as the cortical input from the thalamus is at the rate of alpha. We demonstrate how resulting rhythmic cortical output in this frequency range acts as a neuronal tuner and, hence, leads to synchronization or de-synchronization between brain areas. Finally, we demonstrate that locally restricted structural connectivity changes influence local as well as global dynamics and lead to altered rs-FC.

Roles of dispersal, stochasticity, and nonlinear dynamics in the spatial structuring of seasonal natural enemy-victim populations

Treesearch

Patrick C. Tobin; Ottar N. Bjornstad

2005-01-01

Natural enemy-victim systems may exhibit a range of dynamic space-time patterns. We used a theoretical framework to study spatiotemporal structuring in a transient natural enemy-victim system subject to differential rates of dispersal, stochastic forcing, and nonlinear dynamics. Highly mobile natural enemies that attacked less mobile victims were locally spatially...

Rupture Dynamics and Seismic Radiation on Rough Faults for Simulation-Based PSHA

NASA Astrophysics Data System (ADS)

Mai, P. M.; Galis, M.; Thingbaijam, K. K. S.; Vyas, J. C.; Dunham, E. M.

2017-12-01

Simulation-based ground-motion predictions may augment PSHA studies in data-poor regions or provide additional shaking estimations, incl. seismic waveforms, for critical facilities. Validation and calibration of such simulation approaches, based on observations and GMPE's, is important for engineering applications, while seismologists push to include the precise physics of the earthquake rupture process and seismic wave propagation in 3D heterogeneous Earth. Geological faults comprise both large-scale segmentation and small-scale roughness that determine the dynamics of the earthquake rupture process and its radiated seismic wavefield. We investigate how different parameterizations of fractal fault roughness affect the rupture evolution and resulting near-fault ground motions. Rupture incoherence induced by fault roughness generates realistic ω-2 decay for high-frequency displacement amplitude spectra. Waveform characteristics and GMPE-based comparisons corroborate that these rough-fault rupture simulations generate realistic synthetic seismogram for subsequent engineering application. Since dynamic rupture simulations are computationally expensive, we develop kinematic approximations that emulate the observed dynamics. Simplifying the rough-fault geometry, we find that perturbations in local moment tensor orientation are important, while perturbations in local source location are not. Thus, a planar fault can be assumed if the local strike, dip, and rake are maintained. The dynamic rake angle variations are anti-correlated with local dip angles. Based on a dynamically consistent Yoffe source-time function, we show that the seismic wavefield of the approximated kinematic rupture well reproduces the seismic radiation of the full dynamic source process. Our findings provide an innovative pseudo-dynamic source characterization that captures fault roughness effects on rupture dynamics. Including the correlations between kinematic source parameters, we present a new pseudo-dynamic rupture modeling approach for computing broadband ground-motion time-histories for simulation-based PSHA

Spatially cascading effect of perturbations in experimental meta-ecosystems.

PubMed

Harvey, Eric; Gounand, Isabelle; Ganesanandamoorthy, Pravin; Altermatt, Florian

2016-09-14

Ecosystems are linked to neighbouring ecosystems not only by dispersal, but also by the movement of subsidy. Such subsidy couplings between ecosystems have important landscape-scale implications because perturbations in one ecosystem may affect community structure and functioning in neighbouring ecosystems via increased/decreased subsidies. Here, we combine a general theoretical approach based on harvesting theory and a two-patch protist meta-ecosystem experiment to test the effect of regional perturbations on local community dynamics. We first characterized the relationship between the perturbation regime and local population demography on detritus production using a mathematical model. We then experimentally simulated a perturbation gradient affecting connected ecosystems simultaneously, thus altering cross-ecosystem subsidy exchanges. We demonstrate that the perturbation regime can interact with local population dynamics to trigger unexpected temporal variations in subsidy pulses from one ecosystem to another. High perturbation intensity initially led to the highest level of subsidy flows; however, the level of perturbation interacted with population dynamics to generate a crash in subsidy exchange over time. Both theoretical and experimental results show that a perturbation regime interacting with local community dynamics can induce a collapse in population levels for recipient ecosystems. These results call for integrative management of human-altered landscapes that takes into account regional dynamics of both species and resource flows. © 2016 The Author(s).

Investigation of transonic region of high dynamic response encountered on an elastic supercritical wing

NASA Technical Reports Server (NTRS)

Seidel, David A.; Eckstrom, Clinton V.; Sandford, Maynard C.

1987-01-01

Unsteady aerodynamic data were measured on an aspect ratio 10.3 elastic supercritical wing while undergoing high dynamic response above Mach number of 0.90. These tests were conducted in the NASA Langley Transonic Dynamics Tunnel. A previous test of this wing predicted an unusual instability boundary based upon subcritical response data. During the present test no instability was found, but an angle of attack dependent narrow Mach number region of high dynamic wing response was observed over a wide range of dynamic pressures. The effect on dynamic wing response of wing angle of attack, static outboard control surface deflection and a lower surface spanwise fence located near the 60 percent local chordline was investigated. The driving mechanism of the dynamic wing response appears to be related to chordwise shock movement in conjunction with flow separation and reattachment on both the upper and lower surfaces.

Investigation of transonic region of high dynamic response encountered on an elastic supercritical wing

NASA Technical Reports Server (NTRS)

Seidel, David A.; Eckstrom, Clinton V.; Sandford, Maynard C.

1987-01-01

Unsteady aerodynamic data were measured on an aspect ratio 10.3 elastic supercritical wing while undergoing high dynamic response above a Mach number of 0.90. These tests were conducted in the NASA Langley Transonic Dynamics Tunnel. A previous test of this wing predicted an unusual instability boundary based on subcritical response data. During the present test no instability was found, but an angle of attack dependent narrow Mach number region of high dynamic wing response was observed over a wide range of dynamic pressures. The effect on dynamic wing response of wing angle of attack, static outbound control surface deflection and a lower surface spanwise fence located near the 60 percent local chordline was investigated. The driving mechanism of the dynamic wing response appears to be related to chordwise shock movement in conjunction with flow separation and reattachment on both the upper and lower surfaces.

Fluctuation dynamics in reconnecting current sheets

NASA Astrophysics Data System (ADS)

von Stechow, Adrian; Grulke, Olaf; Ji, Hantao; Yamada, Masaaki; Klinger, Thomas

2015-11-01

During magnetic reconnection, a highly localized current sheet forms at the boundary between opposed magnetic fields. Its steep perpendicular gradients and fast parallel drifts can give rise to a range of instabilities which can contribute to the overall reconnection dynamics. In two complementary laboratory reconnection experiments, MRX (PPPL, Princeton) and VINETA.II (IPP, Greifswald, Germany), magnetic fluctuations are observed within the current sheet. Despite the large differences in geometries (toroidal vs. linear), plasma parameters (high vs. low beta) and magnetic configuration (low vs. high magnetic guide field), similar broadband fluctuation characteristics are observed in both experiments. These are identified as Whistler-like fluctuations in the lower hybrid frequency range that propagate along the current sheet in the electron drift direction. They are intrinsic to the localized current sheet and largely independent of the slower reconnection dynamics. This contribution characterizes these magnetic fluctuations within the wide parameter range accessible by both experiments. Specifically, the fluctuation spectra and wave dispersion are characterized with respect to the magnetic topology and plasma parameters of the reconnecting current sheet.

Extended slow dynamical regime close to the many-body localization transition

NASA Astrophysics Data System (ADS)

Luitz, David J.; Laflorencie, Nicolas; Alet, Fabien

2016-02-01

Many-body localization is characterized by a slow logarithmic growth of the entanglement entropy after a global quantum quench while the local memory of an initial density imbalance remains at infinite time. We investigate how much the proximity of a many-body localized phase can influence the dynamics in the delocalized ergodic regime where thermalization is expected. Using an exact Krylov space technique, the out-of-equilibrium dynamics of the random-field Heisenberg chain is studied up to L =28 sites, starting from an initially unentangled high-energy product state. Within most of the delocalized phase, we find a sub-ballistic entanglement growth S (t ) ∝t1 /z with a disorder-dependent exponent z ≥1 , in contrast with the pure ballistic growth z =1 of clean systems. At the same time, anomalous relaxation is also observed for the spin imbalance I (t ) ∝t-ζ with a continuously varying disorder-dependent exponent ζ , vanishing at the transition. This provides a clear experimental signature for detecting this nonconventional regime.

Seasonal source-sink dynamics at the edge of a species' range

USGS Publications Warehouse

Kanda, L.L.; Fuller, T.K.; Sievert, P.R.; Kellogg, R.L.

2009-01-01

The roles of dispersal and population dynamics in determining species' range boundaries recently have received theoretical attention but little empirical work. Here we provide data on survival, reproduction, and movement for a Virginia opossum (Didelphis virginiana) population at a local distributional edge in central Massachusetts (USA). Most juvenile females that apparently exploited anthropogenic resources survived their first winter, whereas those using adjacent natural resources died of starvation. In spring, adult females recolonized natural areas. A life-table model suggests that a population exploiting anthropogenic resources may grow, acting as source to a geographically interlaced sink of opossums using only natural resources, and also providing emigrants for further range expansion to new human-dominated landscapes. In a geographical model, this source-sink dynamic is consistent with the local distribution identified through road-kill surveys. The Virginia opossum's exploitation of human resources likely ameliorates energetically restrictive winters and may explain both their local distribution and their northward expansion in unsuitable natural climatic regimes. Landscape heterogeneity, such as created by urbanization, may result in source-sink dynamics at highly localized scales. Differential fitness and individual dispersal movements within local populations are key to generating regional distributions, and thus species ranges, that exceed expectations. ?? 2009 by the Ecological Society of America.

Spatiotemporal dynamics of Puumala hantavirus associated with its rodent host, Myodes glareolus

PubMed Central

Weber de Melo, Vanessa; Sheikh Ali, Hanan; Freise, Jona; Kühnert, Denise; Essbauer, Sandra; Mertens, Marc; Wanka, Konrad M; Drewes, Stephan; Ulrich, Rainer G; Heckel, Gerald

2015-01-01

Many viruses significantly impact human and animal health. Understanding the population dynamics of these viruses and their hosts can provide important insights for epidemiology and virus evolution. Puumala virus (PUUV) is a European hantavirus that may cause regional outbreaks of hemorrhagic fever with renal syndrome in humans. Here, we analyzed the spatiotemporal dynamics of PUUV circulating in local populations of its rodent reservoir host, the bank vole (Myodes glareolus) during eight years. Phylogenetic and population genetic analyses of all three genome segments of PUUV showed strong geographical structuring at a very local scale. There was a high temporal turnover of virus strains in the local bank vole populations, but several virus strains persisted through multiple years. Phylodynamic analyses showed no significant changes in the local effective population sizes of PUUV, although vole numbers and virus prevalence fluctuated widely. Microsatellite data demonstrated also a temporally persisting subdivision between local vole populations, but these groups did not correspond to the subdivision in the virus strains. We conclude that restricted transmission between vole populations and genetic drift play important roles in shaping the genetic structure and temporal dynamics of PUUV in its natural host which has several implications for zoonotic risks of the human population. PMID:26136821

An Integrated Tone Mapping for High Dynamic Range Image Visualization

NASA Astrophysics Data System (ADS)

Liang, Lei; Pan, Jeng-Shyang; Zhuang, Yongjun

2018-01-01

There are two type tone mapping operators for high dynamic range (HDR) image visualization. HDR image mapped by perceptual operators have strong sense of reality, but will lose local details. Empirical operators can maximize local detail information of HDR image, but realism is not strong. A common tone mapping operator suitable for all applications is not available. This paper proposes a novel integrated tone mapping framework which can achieve conversion between empirical operators and perceptual operators. In this framework, the empirical operator is rendered based on improved saliency map, which simulates the visual attention mechanism of the human eye to the natural scene. The results of objective evaluation prove the effectiveness of the proposed solution.

Does objective cluster analysis serve as a useful precursor to seasonal precipitation prediction at local scale? Application to western Ethiopia

NASA Astrophysics Data System (ADS)

Zhang, Ying; Moges, Semu; Block, Paul

2018-01-01

Prediction of seasonal precipitation can provide actionable information to guide management of various sectoral activities. For instance, it is often translated into hydrological forecasts for better water resources management. However, many studies assume homogeneity in precipitation across an entire study region, which may prove ineffective for operational and local-level decisions, particularly for locations with high spatial variability. This study proposes advancing local-level seasonal precipitation predictions by first conditioning on regional-level predictions, as defined through objective cluster analysis, for western Ethiopia. To our knowledge, this is the first study predicting seasonal precipitation at high resolution in this region, where lives and livelihoods are vulnerable to precipitation variability given the high reliance on rain-fed agriculture and limited water resources infrastructure. The combination of objective cluster analysis, spatially high-resolution prediction of seasonal precipitation, and a modeling structure spanning statistical and dynamical approaches makes clear advances in prediction skill and resolution, as compared with previous studies. The statistical model improves versus the non-clustered case or dynamical models for a number of specific clusters in northwestern Ethiopia, with clusters having regional average correlation and ranked probability skill score (RPSS) values of up to 0.5 and 33 %, respectively. The general skill (after bias correction) of the two best-performing dynamical models over the entire study region is superior to that of the statistical models, although the dynamical models issue predictions at a lower resolution and the raw predictions require bias correction to guarantee comparable skills.

Complexity in neuronal noise depends on network interconnectivity.

PubMed

Serletis, Demitre; Zalay, Osbert C; Valiante, Taufik A; Bardakjian, Berj L; Carlen, Peter L

2011-06-01

"Noise," or noise-like activity (NLA), defines background electrical membrane potential fluctuations at the cellular level of the nervous system, comprising an important aspect of brain dynamics. Using whole-cell voltage recordings from fast-spiking stratum oriens interneurons and stratum pyramidale neurons located in the CA3 region of the intact mouse hippocampus, we applied complexity measures from dynamical systems theory (i.e., 1/f(γ) noise and correlation dimension) and found evidence for complexity in neuronal NLA, ranging from high- to low-complexity dynamics. Importantly, these high- and low-complexity signal features were largely dependent on gap junction and chemical synaptic transmission. Progressive neuronal isolation from the surrounding local network via gap junction blockade (abolishing gap junction-dependent spikelets) and then chemical synaptic blockade (abolishing excitatory and inhibitory post-synaptic potentials), or the reverse order of these treatments, resulted in emergence of high-complexity NLA dynamics. Restoring local network interconnectivity via blockade washout resulted in resolution to low-complexity behavior. These results suggest that the observed increase in background NLA complexity is the result of reduced network interconnectivity, thereby highlighting the potential importance of the NLA signal to the study of network state transitions arising in normal and abnormal brain dynamics (such as in epilepsy, for example).

Electron dynamics in high energy density plasma bunch generation driven by intense picosecond laser pulse

NASA Astrophysics Data System (ADS)

Li, M.; Yuan, T.; Xu, Y. X.; Luo, S. N.

2018-05-01

When an intense picosecond laser pulse is loaded upon a dense plasma, a high energy density plasma bunch, including electron bunch and ion bunch, can be generated in the target. We simulate this process through one-dimensional particle-in-cell simulation and find that the electron bunch generation is mainly due to a local high energy density electron sphere originated in the plasma skin layer. Once generated the sphere rapidly expands to compress the surrounding electrons and induce high density electron layer, coupled with that, hot electrons are efficiently triggered in the local sphere and traveling in the whole target. Under the compressions of light pressure, forward-running and backward-running hot electrons, a high energy density electron bunch generates. The bunch energy density is as high as TJ/m3 order of magnitude in our conditions, which is significant in laser driven dynamic high pressure generation and may find applications in high energy density physics.

The effects of permafrost thaw on soil hydrologic, thermal, and carbon dynamics in an Alaskan peatland

Treesearch

Jonathan A. O' Donnell; M.Torre Jorgenson; Jennifer W. Harden; A.David McGuire; Mikhail Z. Kanevskiy; Kimberly P. Wickland

2012-01-01

Recent warming at high-latitudes has accelerated permafrost thaw in northern peatlands, and thaw can have profound effects on local hydrology and ecosystem carbon balance. To assess the impact of permafrost thaw on soil organic carbon (OC) dynamics, we measured soil hydrologic and thermal dynamics and soil OC stocks across a collapse-scar bog chronosequence in interior...

Linear-Nonlinear-Poisson Models of Primate Choice Dynamics

ERIC Educational Resources Information Center

Corrado, Greg S.; Sugrue, Leo P.; Seung, H. Sebastian; Newsome, William T.

2005-01-01

The equilibrium phenomenon of matching behavior traditionally has been studied in stationary environments. Here we attempt to uncover the local mechanism of choice that gives rise to matching by studying behavior in a highly dynamic foraging environment. In our experiments, 2 rhesus monkeys ("Macacca mulatta") foraged for juice rewards by making…

Time, space, and disorder in the expanding proteome universe.

PubMed

Minde, David-Paul; Dunker, A Keith; Lilley, Kathryn S

2017-04-01

Proteins are highly dynamic entities. Their myriad functions require specific structures, but proteins' dynamic nature ranges all the way from the local mobility of their amino acid constituents to mobility within and well beyond single cells. A truly comprehensive view of the dynamic structural proteome includes: (i) alternative sequences, (ii) alternative conformations, (iii) alternative interactions with a range of biomolecules, (iv) cellular localizations, (v) alternative behaviors in different cell types. While these aspects have traditionally been explored one protein at a time, we highlight recently emerging global approaches that accelerate comprehensive insights into these facets of the dynamic nature of protein structure. Computational tools that integrate and expand on multiple orthogonal data types promise to enable the transition from a disjointed list of static snapshots to a structurally explicit understanding of the dynamics of cellular mechanisms. © 2017 The Authors. Proteomics Published by Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Direct Numerical Simulations of Small-Scale Gravity Wave Instability Dynamics in Variable Stratification and Shear

NASA Astrophysics Data System (ADS)

Mixa, T.; Fritts, D. C.; Laughman, B.; Wang, L.; Kantha, L. H.

2015-12-01

Multiple observations provide compelling evidence that gravity wave dissipation events often occur in multi-scale environments having highly-structured wind and stability profiles extending from the stable boundary layer into the mesosphere and lower thermosphere. Such events tend to be highly localized and thus yield local energy and momentum deposition and efficient secondary gravity wave generation expected to have strong influences at higher altitudes [e.g., Fritts et al., 2013; Baumgarten and Fritts, 2014]. Lidars, radars, and airglow imagers typically cannot achieve the spatial resolution needed to fully quantify these small-scale instability dynamics. Hence, we employ high-resolution modeling to explore these dynamics in representative environments. Specifically, we describe numerical studies of gravity wave packets impinging on a sheet of high stratification and shear and the resulting instabilities and impacts on the gravity wave amplitude and momentum flux for various flow and gravity wave parameters. References: Baumgarten, Gerd, and David C. Fritts (2014). Quantifying Kelvin-Helmholtz instability dynamics observed in noctilucent clouds: 1. Methods and observations. Journal of Geophysical Research: Atmospheres, 119.15, 9324-9337. Fritts, D. C., Wang, L., & Werne, J. A. (2013). Gravity wave-fine structure interactions. Part I: Influences of fine structure form and orientation on flow evolution and instability. Journal of the Atmospheric Sciences, 70(12), 3710-3734.

Coherent Optomechanical Switch for Motion Transduction Based on Dynamically Localized Mechanical Modes

NASA Astrophysics Data System (ADS)

Fu, Hao; Gong, Zhi-cheng; Yang, Li-ping; Mao, Tian-hua; Sun, Chang-pu; Yi, Su; Li, Yong; Cao, Geng-yu

2018-05-01

We present a coherent switch for motion transduction based on dynamically localized mechanical modes in an optomechanical system consisting of two coupled cantilevers. By placing one of the cantilevers inside a harmonically oscillating optical trap, the effective coupling strength between the degenerate cantilevers can be tuned experimentally. In particular, when the coupling is turned off, we show that mechanical motion becomes tightly bounded to the isolated cantilevers rather than propagating away as a result of destructive Landau-Zener-Stückelberg-like interference. The effect of dynamical localization is adopted to implement a coherent switch, through which the tunneling oscillation is turned on and off with well-preserved phase coherence. We provide a simple yet efficient approach for full control of the coupling between mechanical resonators, which is highly desirable for coherent control of transport phenomena in a coupled-mechanical-resonator array.

Charge transport calculations by a wave-packet dynamical approach using maximally localized Wannier functions based on density functional theory: Application to high-mobility organic semiconductors

NASA Astrophysics Data System (ADS)

Ishii, Hiroyuki; Kobayashi, Nobuhiko; Hirose, Kenji

2017-01-01

We present a wave-packet dynamical approach to charge transport using maximally localized Wannier functions based on density functional theory including van der Waals interactions. We apply it to the transport properties of pentacene and rubrene single crystals and show the temperature-dependent natures from bandlike to thermally activated behaviors as a function of the magnitude of external static disorder. We compare the results with those obtained by the conventional band and hopping models and experiments.

Peculiarities of Vibration Characteristics of Amorphous Ices

NASA Astrophysics Data System (ADS)

Gets, Kirill V.; Subbotin, Oleg S.; Belosludov, Vladimir R.

2012-03-01

Dynamic properties of low (LDA), high (HDA) and very high (VHDA) density amorphous ices were investigated within the approach based on Lattice Dynamics simulations. In this approach, we assume that the short-range molecular order mainly determines the dynamic and thermodynamic properties of amorphous ices. Simulation cell of 512 water molecules with periodical boundary conditions and disordering allows us to study dynamical properties and dispersion curves in the Brillouin zone of pseudo-crystal. Existence of collective phenomena in amorphous ices which is usual for crystals but anomalous for disordered phase was confirmed in our simulations. Molecule amplitudes of delocalized (collective) as well as localized vibrations have been considered.

Many-body localization beyond eigenstates in all dimensions

NASA Astrophysics Data System (ADS)

Chandran, A.; Pal, A.; Laumann, C. R.; Scardicchio, A.

2016-10-01

Isolated quantum systems with quenched randomness exhibit many-body localization (MBL), wherein they do not reach local thermal equilibrium even when highly excited above their ground states. It is widely believed that individual eigenstates capture this breakdown of thermalization at finite size. We show that this belief is false in general and that a MBL system can exhibit the eigenstate properties of a thermalizing system. We propose that localized approximately conserved operators (l*-bits) underlie localization in such systems. In dimensions d >1 , we further argue that the existing MBL phenomenology is unstable to boundary effects and gives way to l*-bits . Physical consequences of l*-bits include the possibility of an eigenstate phase transition within the MBL phase unrelated to the dynamical transition in d =1 and thermal eigenstates at all parameters in d >1 . Near-term experiments in ultracold atomic systems and numerics can probe the dynamics generated by boundary layers and emergence of l*-bits .

Local stability of galactic discs in modified dynamics

NASA Astrophysics Data System (ADS)

Shenavar, Hossein; Ghafourian, Neda

2018-04-01

The local stability of stellar and fluid discs, under a new modified dynamical model, is surveyed by using WKB approximation. The exact form of the modified Toomre criterion is derived for both types of systems and it is shown that the new model is, in all situations, more locally stable than Newtonian model. In addition, it has been proved that the central surface density of the galaxies plays an important role in the local stability in the sense that low surface brightness (LSB) galaxies are more stable than high surface brightness (HSBs). Furthermore, the growth rate in the new model is found to be lower than the Newtonian one. We found that, according to this model, the local instability is related to the ratio of surface density of the disc to a critical surface density Σcrit. We provide observational evidence to support this result based on star formation rate in HSBs and LSBs.

Dynamics of Large Molecules and Molecular Clusters.

DTIC Science & Technology

1984-06-01

Spectroscop., The high local densities attained in the pexpasion are beneficial for two-photon spectroscopy. High-resolution vibrational two-photon...i.e., anthracene, tetracene and pentacene , in large clusters of Ar, which were synthesized in high-flow supersonic jets (stagnation pressure p : 3000

Spatial dynamics of bar-headed geese migration in the context of H5N1

USGS Publications Warehouse

Bourouiba, L.; Wu, Jianhong; Newman, S.; Takekawa, John Y.; Natdorj, T.; Batbayar, N.; Bishop, C.M.; Hawkes, L.A.; Butler, P.J.; Wikelski, M.

2010-01-01

Virulent outbreaks of highly pathogenic avian influenza (HPAI) since 2005 have raised the question about the roles of migratory and wild birds in the transmission of HPAI. Despite increased monitoring, the role of wild waterfowl as the primary source of the highly pathogenic H5N1 has not been clearly established. The impact of outbreaks of HPAI among species of wild birds which are already endangered can nevertheless have devastating consequences for the local and non-local ecology where migratory species are established. Understanding the entangled dynamics of migration and the disease dynamics will be key to prevention and control measures for humans, migratory birds and poultry. Here, we present a spatial dynamic model of seasonal migration derived from first principles and linking the local dynamics during migratory stopovers to the larger scale migratory routes. We discuss the effect of repeated epizootic at specific migratory stopovers for bar-headed geese (Anser indicus). We find that repeated deadly outbreaks of H5N1 on stopovers during the autumn migration of bar-headed geese could lead to a larger reduction in the size of the equilibrium bird population compared with that obtained after repeated outbreaks during the spring migration. However, the opposite is true during the first few years of transition to such an equilibrium. The age-maturation process of juvenile birds which are more susceptible to H5N1 reinforces this result.

Buffers and Oscillations in Intracellular Ca2+ Dynamics

PubMed Central

Falcke, Martin

2003-01-01

I model the behavior of intracellular Ca2+ release with high buffer concentrations. The model uses a spatially discrete array of channel clusters. The channel subunit dynamics is a stochastic representation of the DeYoung-Keizer model. The calculations show that the concentration profile of fast buffer around an open channel is more localized than that of slow buffers. Slow buffers allow for release of larger amounts of Ca2+ from the endoplasmic reticulum and hence bind more Ca2+ than fast buffers with the same dissociation constant and concentration. I find oscillation-like behavior for high slow buffer concentration and low Ca2+ content of the endoplasmic reticulum. High concentration of slow buffer leads to oscillation-like behavior by repetitive wave nucleation for high Ca2+ content of the endoplasmic reticulum. Localization of Ca2+ release by slow buffer, as used in experiments, can be reproduced by the modeling approach. PMID:12524263

Predictions and Experimental Microstructural Characterization of High Strain Rate Failure Modes in Layered Aluminum Composites

NASA Astrophysics Data System (ADS)

Khanikar, Prasenjit

Different aluminum alloys can be combined, as composites, for tailored dynamic applications. Most investigations pertaining to metallic alloy layered composites, however, have been based on quasi-static approaches. The dynamic failure of layered metallic composites, therefore, needs to be characterized in terms of strength, toughness, and fracture response. A dislocation-density based crystalline plasticity formulation, finite-element techniques, rational crystallographic orientation relations and a new fracture methodology were used to predict the failure modes associated with the high strain rate behavior of aluminum layered composites. Two alloy layers, a high strength alloy, aluminum 2195, and an aluminum alloy 2139, with high toughness, were modeled with representative microstructures that included precipitates, dispersed particles, and different grain boundary (GB) distributions. The new fracture methodology, based on an overlap method and phantom nodes, is used with a fracture criteria specialized for fracture on different cleavage planes. One of the objectives of this investigation, therefore, was to determine the optimal arrangements of the 2139 and 2195 aluminum alloys for a metallic layered composite that would combine strength, toughness and fracture resistance for high strain-rate applications. Different layer arrangements were investigated for high strain-rate applications, and the optimal arrangement was with the high toughness 2139 layer on the bottom, which provided extensive shear strain localization, and the high strength 2195 layer on the top for high strength resistance. The layer thickness of the bottom high toughness layer also affected the bending behavior of the roll-boned interface and the potential delamination of the layers. Shear strain localization, dynamic cracking and delamination were the mutually competing failure mechanisms for the layered metallic composite, and control of these failure modes can be optimized for high strain-rate applications. The second major objective of this investigation was the use of recently developed dynamic fracture formulations to model and analyze the crack nucleation and propagation of aluminum layered composites subjected to high strain rate loading conditions and how microstructural effects, such as precipitates, dispersed particles, and GB orientations affect failure evolution. This dynamic fracture approach is used to investigate crack nucleation and crack growth as a function of the different microstructural characteristics of each alloy in layered composites with and without pre-existing cracks. The zigzag nature of the crack paths were mainly due to the microstructural features, such as precipitates and dispersed particles distributions and orientations ahead of the crack front, and it underscored the capabilities of the fracture methodology. The evolution of dislocation density and the formation of localized shear slip contributed to the blunting of the propagating crack. Extensive geometrical and thermal softening due to the localized plastic slip also affected crack path orientations and directions. These softening mechanisms resulted in the switching of cleavage planes, which affected crack path orientations. Interface delamination can also have an important role in the failure and toughening of the layered composites. Different scenarios of delamination were investigated, such as planar crack growth and crack penetration into the layers. The presence of brittle surface oxide platelets in the interface region also significantly influenced the interface delamination process. Transmission Electron Microscopy (TEM), Scanning Electron Microscopy (SEM) and Optical Microscopy (OM) characterization provided further physical insights and validation of the predictive capabilities. The inherent microstructural features of each alloy play a significant role in the dynamic fracture, shear strain localization, and interface delamination of the layered metallic composite. These microstructural features, such as precipitates, dispersed particles, and GB orientations and distributions can be optimized for desired behavior of metallic composites.

Frequency-dependent local field factors in dielectric liquids by a polarizable force field and molecular dynamics simulations

NASA Astrophysics Data System (ADS)

Davari, Nazanin; Haghdani, Shokouh; Åstrand, Per-Olof

2015-12-01

A force field model for calculating local field factors, i.e. the linear response of the local electric field for example at a nucleus in a molecule with respect to an applied electric field, is discussed. It is based on a combined charge-transfer and point-dipole interaction model for the polarizability, and thereby it includes two physically distinct terms for describing electronic polarization: changes in atomic charges arising from transfer of charge between the atoms and atomic induced dipole moments. A time dependence is included both for the atomic charges and the atomic dipole moments and if they are assumed to oscillate with the same frequency as the applied electric field, a model for frequency-dependent properties are obtained. Furthermore, if a life-time of excited states are included, a model for the complex frequency-dependent polariability is obtained including also information about excited states and the absorption spectrum. We thus present a model for the frequency-dependent local field factors through the first molecular excitation energy. It is combined with molecular dynamics simulations of liquids where a large set of configurations are sampled and for which local field factors are calculated. We are normally not interested in the average of the local field factor but rather in configurations where it is as high as possible. In electrical insulation, we would like to avoid high local field factors to reduce the risk for electrical breakdown, whereas for example in surface-enhanced Raman spectroscopy, high local field factors are desired to give dramatically increased intensities.

Numerical simulations (2D) on the influence of pre-existing local structures and seismic source characteristics in earthquake-volcano interactions

NASA Astrophysics Data System (ADS)

Farías, Cristian; Galván, Boris; Miller, Stephen A.

2017-09-01

Earthquake triggering of hydrothermal and volcanic systems is ubiquitous, but the underlying processes driving these systems are not well-understood. We numerically investigate the influence of seismic wave interaction with volcanic systems simulated as a trapped, high-pressure fluid reservoir connected to a fluid-filled fault system in a 2-D poroelastic medium. Different orientations and earthquake magnitudes are studied to quantify dynamic and static stress, and pore pressure changes induced by a seismic event. Results show that although the response of the system is mainly dominated by characteristics of the radiated seismic waves, local structures can also play an important role on the system dynamics. The fluid reservoir affects the seismic wave front, distorts the static overpressure pattern induced by the earthquake, and concentrates the kinetic energy of the incoming wave on its boundaries. The static volumetric stress pattern inside the fault system is also affected by the local structures. Our results show that local faults play an important role in earthquake-volcanic systems dynamics by concentrating kinetic energy inside and acting as wave-guides that have a breakwater-like behavior. This generates sudden changes in pore pressure, volumetric expansion, and stress gradients. Local structures also influence the regional Coulomb yield function. Our results show that local structures affect the dynamics of volcanic and hydrothermal systems, and should be taken into account when investigating triggering of these systems from nearby or distant earthquakes.

Species Turnover through Time: Colonization and Extinction Dynamics across Metacommunities.

PubMed

Nuvoloni, Felipe Micali; Feres, Reinaldo José Fazzio; Gilbert, Benjamin

2016-06-01

Island biogeography and metacommunity theory often use equilibrium assumptions to predict local diversity, yet nonequilibrium dynamics are common in nature. In nonequilibrium communities, local diversity fluctuates through time as the relative importance of colonization and extinction change. Here, we test the prevalence and causes of nonequilibrium dynamics in metacommunities of mites associated with rubber trees distributed over large spatial (>1,000 km) and temporal (>30-60 generations) scales in Brazil. We measured colonization and extinction rates to test species turnover and nonequilibrium dynamics over a growing season. Mite metacommunities exhibited nonequilibrium dynamics for most months of the year, and these dynamics tracked climatic conditions. Monthly shifts in temperature of more than 1°C resulted in nonequilibrium dynamics, as did mean temperatures outside of two critical ranges. Nonequilibrium dynamics were caused by a change in colonization with temperature change and changes in both colonization and extinction with absolute temperature. Species turnover showed different trends; high relative humidity increased both colonization and extinction rates, increasing turnover but not nonequilibrium dynamics. Our study illustrates that testing nonequilibrium dynamics can provide new insights into the drivers of colonization, extinction, and diversity fluctuations in metacommunities.

Efficient Radiative Transfer for Dynamically Evolving Stratified Atmospheres

NASA Astrophysics Data System (ADS)

Judge, Philip G.

2017-12-01

We present a fast multi-level and multi-atom non-local thermodynamic equilibrium radiative transfer method for dynamically evolving stratified atmospheres, such as the solar atmosphere. The preconditioning method of Rybicki & Hummer (RH92) is adopted. But, pressed for the need of speed and stability, a “second-order escape probability” scheme is implemented within the framework of the RH92 method, in which frequency- and angle-integrals are carried out analytically. While minimizing the computational work needed, this comes at the expense of numerical accuracy. The iteration scheme is local, the formal solutions for the intensities are the only non-local component. At present the methods have been coded for vertical transport, applicable to atmospheres that are highly stratified. The probabilistic method seems adequately fast, stable, and sufficiently accurate for exploring dynamical interactions between the evolving MHD atmosphere and radiation using current computer hardware. Current 2D and 3D dynamics codes do not include this interaction as consistently as the current method does. The solutions generated may ultimately serve as initial conditions for dynamical calculations including full 3D radiative transfer. The National Center for Atmospheric Research is sponsored by the National Science Foundation.

Texturing Silicon Nanowires for Highly Localized Optical Modulation of Cellular Dynamics.

PubMed

Fang, Yin; Jiang, Yuanwen; Acaron Ledesma, Hector; Yi, Jaeseok; Gao, Xiang; Weiss, Dara E; Shi, Fengyuan; Tian, Bozhi

2018-06-18

Engineered silicon-based materials can display photoelectric and photothermal responses under light illumination, which may lead to further innovations at the silicon-biology interfaces. Silicon nanowires have small radial dimensions, promising as highly localized cellular modulators, however the single crystalline form typically has limited photothermal efficacy due to the poor light absorption and fast heat dissipation. In this work, we report strategies to improve the photothermal response from silicon nanowires by introducing nanoscale textures on the surface and in the bulk. We next demonstrate high-resolution extracellular modulation of calcium dynamics in a number of mammalian cells including glial cells, neurons, and cancer cells. The new materials may be broadly used in probing and modulating electrical and chemical signals at the subcellular length scale, which is currently a challenge in the field of electrophysiology or cellular engineering.

Modeling and Simulation of Plasma-Assisted Ignition and Combustion

DTIC Science & Technology

2013-10-01

local plasma chemistry effects over heat transport in achieving “volumetric” ignition using pulse nanosecond discharges. •detailed parametric studies...electrical breakdown • cathode sheath formation • electron impact dynamics PLASMA DISCHARGE DYNAMICS Plasma Chemistry Ionization, Excitation...quenching of excited species nonequilibrium plasma chemistry low temperature radical chemistry high temperature combustion chemistry School of

Movement Patterns, Social Dynamics, and the Evolution of Cooperation

PubMed Central

Smaldino, Paul E.; Schank, Jeffrey C.

2012-01-01

The structure of social interactions influences many aspects of social life, including the spread of information and behavior, and the evolution of social phenotypes. After dispersal, organisms move around throughout their lives, and the patterns of their movement influence their social encounters over the course of their lifespan. Though both space and mobility are known to influence social evolution, there is little analysis of the influence of specific movement patterns on evolutionary dynamics. We explored the effects of random movement strategies on the evolution of cooperation using an agent-based prisoner’s dilemma model with mobile agents. This is the first systematic analysis of a model in which cooperators and defectors can use different random movement strategies, which we chose to fall on a spectrum between highly exploratory and highly restricted in their search tendencies. Because limited dispersal and restrictions to local neighborhood size are known to influence the ability of cooperators to effectively assort, we also assessed the robustness of our findings with respect to dispersal and local capacity constraints. We show that differences in patterns of movement can dramatically influence the likelihood of cooperator success, and that the effects of different movement patterns are sensitive to environmental assumptions about offspring dispersal and local space constraints. Since local interactions implicitly generate dynamic social interaction networks, we also measured the average number of unique and total interactions over a lifetime and considered how these emergent network dynamics helped explain the results. This work extends what is known about mobility and the evolution of cooperation, and also has general implications for social models with randomly moving agents. PMID:22838026

Ultrasensitive investigations of biological systems by fluorescence correlation spectroscopy.

PubMed

Haustein, Elke; Schwille, Petra

2003-02-01

Fluorescence correlation spectroscopy (FCS) extracts information about molecular dynamics from the tiny fluctuations that can be observed in the emission of small ensembles of fluorescent molecules in thermodynamic equilibrium. Employing a confocal setup in conjunction with highly dilute samples, the average number of fluorescent particles simultaneously within the measurement volume (approximately 1 fl) is minimized. Among the multitude of chemical and physical parameters accessible by FCS are local concentrations, mobility coefficients, rate constants for association and dissociation processes, and even enzyme kinetics. As any reaction causing an alteration of the primary measurement parameters such as fluorescence brightness or mobility can be monitored, the application of this noninvasive method to unravel processes in living cells is straightforward. Due to the high spatial resolution of less than 0.5 microm, selective measurements in cellular compartments, e.g., to probe receptor-ligand interactions on cell membranes, are feasible. Moreover, the observation of local molecular dynamics provides access to environmental parameters such as local oxygen concentrations, pH, or viscosity. Thus, this versatile technique is of particular attractiveness for researchers striving for quantitative assessment of interactions and dynamics of small molecular quantities in biologically relevant systems.

Spatiotemporal dynamics of the spin transition in [Fe (HB(tz)3) 2] single crystals

NASA Astrophysics Data System (ADS)

Ridier, Karl; Rat, Sylvain; Shepherd, Helena J.; Salmon, Lionel; Nicolazzi, William; Molnár, Gábor; Bousseksou, Azzedine

2017-10-01

The spatiotemporal dynamics of the spin transition have been thoroughly investigated in single crystals of the mononuclear spin-crossover (SCO) complex [Fe (HB (tz )3)2] (tz = 1 ,2 ,4-triazol-1-yl) by optical microscopy. This compound exhibits an abrupt spin transition centered at 334 K with a narrow thermal hysteresis loop of ˜1 K (first-order transition). Most single crystals of this compound reveal exceptional resilience upon repeated switching (several hundred cycles), which allowed repeatable and quantitative measurements of the spatiotemporal dynamics of the nucleation and growth processes to be carried out. These experiments revealed remarkable properties of the thermally induced spin transition: high stability of the thermal hysteresis loop, unprecedented large velocities of the macroscopic low-spin/high-spin phase boundaries up to 500 µm/s, and no visible dependency on the temperature scan rate. We have also studied the dynamics of the low-spin → high-spin transition induced by a local photothermal excitation generated by a spatially localized (Ø = 2 μ m ) continuous laser beam. Interesting phenomena have been evidenced both in quasistatic and dynamic conditions (e.g., threshold effects and long incubation periods, thermal activation of the phase boundary propagation, stabilization of the crystal in a stationary biphasic state, and thermal cutoff frequency). These measurements demonstrated the importance of thermal effects in the transition dynamics, and they enabled an accurate determination of the thermal properties of the SCO compound in the framework of a simple theoretical model.

Nanostructural organization in carbon disulfide/ionic liquid mixtures: Molecular dynamics simulations and optical Kerr effect spectroscopy

NASA Astrophysics Data System (ADS)

Yang, Peng; Voth, Gregory A.; Xiao, Dong; Hines, Larry G.; Bartsch, Richard A.; Quitevis, Edward L.

2011-07-01

In this paper, the nanostructural organization and subpicosecond intermolecular dynamics in the mixtures of CS2 and the room temperature ionic liquid (IL) 1-pentyl-3-methylimidazolium bis{(trifluoromethane)sulfonyl}amide ([C5mim][NTf2]) were studied as a function of concentration using molecular dynamics (MD) simulations and optical heterodyne-detected Raman-induced Kerr effect spectroscopy. At low CS2 concentrations (<10 mol.% CS2/IL), the MD simulations indicate that the CS2 molecules are localized in the nonpolar domains. In contrast, at higher concentrations (≥10 mol.% CS2/IL), the MD simulations show aggregation of the CS2 molecules. The optical Kerr effect (OKE) spectra of the mixtures are interpreted in terms of an additivity model with the components arising from the subpicosecond dynamics of CS2 and the IL. Comparison of the CS2-component with the OKE spectra of CS2 in alkane solvents is consistent with CS2 mainly being localized in the nonpolar domains, even at high CS2 concentrations, and the local CS2 concentration being higher than the bulk CS2 concentration.

Heterogeneity in homogeneous nucleation from billion-atom molecular dynamics simulation of solidification of pure metal.

PubMed

Shibuta, Yasushi; Sakane, Shinji; Miyoshi, Eisuke; Okita, Shin; Takaki, Tomohiro; Ohno, Munekazu

2017-04-05

Can completely homogeneous nucleation occur? Large scale molecular dynamics simulations performed on a graphics-processing-unit rich supercomputer can shed light on this long-standing issue. Here, a billion-atom molecular dynamics simulation of homogeneous nucleation from an undercooled iron melt reveals that some satellite-like small grains surrounding previously formed large grains exist in the middle of the nucleation process, which are not distributed uniformly. At the same time, grains with a twin boundary are formed by heterogeneous nucleation from the surface of the previously formed grains. The local heterogeneity in the distribution of grains is caused by the local accumulation of the icosahedral structure in the undercooled melt near the previously formed grains. This insight is mainly attributable to the multi-graphics processing unit parallel computation combined with the rapid progress in high-performance computational environments.Nucleation is a fundamental physical process, however it is a long-standing issue whether completely homogeneous nucleation can occur. Here the authors reveal, via a billion-atom molecular dynamics simulation, that local heterogeneity exists during homogeneous nucleation in an undercooled iron melt.

Assessing hypotheses about nesting site occupancy dynamics

USGS Publications Warehouse

Bled, Florent; Royle, J. Andrew; Cam, Emmanuelle

2011-01-01

Hypotheses about habitat selection developed in the evolutionary ecology framework assume that individuals, under some conditions, select breeding habitat based on expected fitness in different habitat. The relationship between habitat quality and fitness may be reflected by breeding success of individuals, which may in turn be used to assess habitat quality. Habitat quality may also be assessed via local density: if high-quality sites are preferentially used, high density may reflect high-quality habitat. Here we assessed whether site occupancy dynamics vary with site surrogates for habitat quality. We modeled nest site use probability in a seabird subcolony (the Black-legged Kittiwake, Rissa tridactyla) over a 20-year period. We estimated site persistence (an occupied site remains occupied from time t to t + 1) and colonization through two subprocesses: first colonization (site creation at the timescale of the study) and recolonization (a site is colonized again after being deserted). Our model explicitly incorporated site-specific and neighboring breeding success and conspecific density in the neighborhood. Our results provided evidence that reproductively "successful'' sites have a higher persistence probability than "unsuccessful'' ones. Analyses of site fidelity in marked birds and of survival probability showed that high site persistence predominantly reflects site fidelity, not immediate colonization by new owners after emigration or death of previous owners. There is a negative quadratic relationship between local density and persistence probability. First colonization probability decreases with density, whereas recolonization probability is constant. This highlights the importance of distinguishing initial colonization and recolonization to understand site occupancy. All dynamics varied positively with neighboring breeding success. We found evidence of a positive interaction between site-specific and neighboring breeding success. We addressed local population dynamics using a site occupancy approach integrating hypotheses developed in behavioral ecology to account for individual decisions. This allows development of models of population and metapopulation dynamics that explicitly incorporate ecological and evolutionary processes.

Factors associated with the deposition of Cladophora on Lake Michigan beaches in 2012

USGS Publications Warehouse

Riley, Stephen C.; Tucker, Taaja R.; Adams, Jean V.; Fogarty, Lisa R.; Lafrancois, Brenda Moraska

2015-01-01

Deposition of the macroalgae Cladophora spp. was monitored on 18 beaches around Lake Michigan during 2012 at a high temporal frequency. We observed a high degree of spatial variability in Cladophora deposition among beaches on Lake Michigan, even within local regions, with no clear regional pattern in the intensity of Cladophora deposition. A strong seasonal pattern in Cladophora deposition was observed, with the heaviest deposition occurring during mid-summer. Several beaches exhibited high temporal variability in Cladophora deposition over short time scales, suggesting that drifting algal mats may be extremely dynamic in nearshore environments of the Great Lakes. Cladophora deposition on Lake Michigan beaches was primarily related to the presence of nearshore structures, local population density, and nearshore bathymetry. There was relatively little evidence that waves, winds, or currents were associated with Cladophora deposition on beaches, but this may be due to the relatively poor resolution of existing nearshore hydrodynamic data. Developing a predictive understanding of beach-cast Cladophora dynamics in Great Lakes environments may require both intensive Cladophora monitoring and fine-scale local hydrodynamic modeling efforts.

Restoration of oyster reefs in an estuarine lake: population dynamics and shell accretion

USGS Publications Warehouse

Casas, Sandra M.; La Peyre, Jerome F.; La Peyre, Megan K.

2015-01-01

Restoration activities inherently depend on understanding the spatial and temporal variation in basic demographic rates of the species of interest. For species that modify and maintain their own habitat such as the eastern oyster Crassostrea virginica, understanding demographic rates and their impacts on population and habitat success are crucial to ensuring restoration success. We measured oyster recruitment, density, size distribution, biomass, mortality and Perkinsus marinus infection intensity quarterly for 3 yr on shallow intertidal reefs created with shell cultch in March 2009. All reefs were located within Sister Lake, LA. Reefs were placed in pairs at 3 different locations within the lake; pairs were placed in low and medium energy sites within each location. Restored reefs placed within close proximity (<8 km) experienced very different development trajectories; there was high inter-site and inter-annual variation in recruitment and mortality of oysters, with only slight variation in growth curves. Despite this high variation in population dynamics, all reefs supported dense oyster populations (728 ± 102 ind. m-2) and high live oyster biomass (>14.6 kg m-2) at the end of 3 yr. Shell accretion, on average, exceeded estimated rates required to keep pace with local subsidence and shell loss. Variation in recruitment, growth and survival drives local site-specific population success, which highlights the need to understand local water quality, hydrodynamics, and metapopulation dynamics when planning restoration.

Neocortical dynamics due to axon propagation delays in cortico-cortical fibers: EEG traveling and standing waves with implications for top-down influences on local networks and white matter disease

PubMed Central

Nunez, Paul L.; Srinivasan, Ramesh

2013-01-01

The brain is treated as a nested hierarchical complex system with substantial interactions across spatial scales. Local networks are pictured as embedded within global fields of synaptic action and action potentials. Global fields may act top-down on multiple networks, acting to bind remote networks. Because of scale-dependent properties, experimental electrophysiology requires both local and global models that match observational scales. Multiple local alpha rhythms are embedded in a global alpha rhythm. Global models are outlined in which cm-scale dynamic behaviors result largely from propagation delays in cortico-cortical axons and cortical background excitation level, controlled by neuromodulators on long time scales. The idealized global models ignore the bottom-up influences of local networks on global fields so as to employ relatively simple mathematics. The resulting models are transparently related to several EEG and steady state visually evoked potentials correlated with cognitive states, including estimates of neocortical coherence structure, traveling waves, and standing waves. The global models suggest that global oscillatory behavior of self-sustained (limit-cycle) modes lower than about 20 Hz may easily occur in neocortical/white matter systems provided: Background cortical excitability is sufficiently high; the strength of long cortico-cortical axon systems is sufficiently high; and the bottom-up influence of local networks on the global dynamic field is sufficiently weak. The global models provide "entry points" to more detailed studies of global top-down influences, including binding of weakly connected networks, modulation of gamma oscillations by theta or alpha rhythms, and the effects of white matter deficits. PMID:24505628

Fast, label-free super-resolution live-cell imaging using rotating coherent scattering (ROCS) microscopy

NASA Astrophysics Data System (ADS)

Jünger, Felix; Olshausen, Philipp V.; Rohrbach, Alexander

2016-07-01

Living cells are highly dynamic systems with cellular structures being often below the optical resolution limit. Super-resolution microscopes, usually based on fluorescence cell labelling, are usually too slow to resolve small, dynamic structures. We present a label-free microscopy technique, which can generate thousands of super-resolved, high contrast images at a frame rate of 100 Hertz and without any post-processing. The technique is based on oblique sample illumination with coherent light, an approach believed to be not applicable in life sciences because of too many interference artefacts. However, by circulating an incident laser beam by 360° during one image acquisition, relevant image information is amplified. By combining total internal reflection illumination with dark-field detection, structures as small as 150 nm become separable through local destructive interferences. The technique images local changes in refractive index through scattered laser light and is applied to living mouse macrophages and helical bacteria revealing unexpected dynamic processes.

Fast, label-free super-resolution live-cell imaging using rotating coherent scattering (ROCS) microscopy

PubMed Central

Jünger, Felix; Olshausen, Philipp v.; Rohrbach, Alexander

2016-01-01

Living cells are highly dynamic systems with cellular structures being often below the optical resolution limit. Super-resolution microscopes, usually based on fluorescence cell labelling, are usually too slow to resolve small, dynamic structures. We present a label-free microscopy technique, which can generate thousands of super-resolved, high contrast images at a frame rate of 100 Hertz and without any post-processing. The technique is based on oblique sample illumination with coherent light, an approach believed to be not applicable in life sciences because of too many interference artefacts. However, by circulating an incident laser beam by 360° during one image acquisition, relevant image information is amplified. By combining total internal reflection illumination with dark-field detection, structures as small as 150 nm become separable through local destructive interferences. The technique images local changes in refractive index through scattered laser light and is applied to living mouse macrophages and helical bacteria revealing unexpected dynamic processes. PMID:27465033

Cooperative dynamics in ultrasoft 2D crystals

NASA Astrophysics Data System (ADS)

Sprakel, Joris; van der Meer, Berend; Dijkstra, Marjolein; van der Gucht, Jasper

2015-03-01

The creation, annihilation, and diffusion of defects in crystal lattices play an important role during crystal melting and deformation. Although it is well understood how defects form and react when crystals are subjected to external stresses, it remains unclear how crystals cope with internal stresses. We report a study in which we create a highly localized internal stress, by means of optical tweezing, in a crystal formed from micrometer-sized colloidal spheres and directly observe how the solid reacts using microscopy. We find that, even though the excitation is highly localized, a collective dance of colloidal particles results; these collective modes take the form of closed rings or open-ended strings, depending on the sequence of events which nucleate the rearrangements. Surprisingly, we find from Brownian Dynamics simulations that these cooperative dynamics are thermally-activated modes inherent to the crystal, and can even occur through a single, sufficiently large thermal fluctuation, resulting in the irreversible displacement of 100s of particles from their lattice sites.

Modeling local extinction in turbulent combustion using an embedding method

NASA Astrophysics Data System (ADS)

Knaus, Robert; Pantano, Carlos

2012-11-01

Local regions of extinction in diffusion flames, called ``flame holes,'' can reduce the efficiency of combustion and increase the production of certain pollutants. At sufficiently high speeds, a flame may also be lifted from the rim of the burner to a downstream location that may be stable. These two phenomena share a common underlying mechanism of propagation related to edge-flame dynamics where chemistry and fluid mechanics are equally important. We present a formulation that describes the formation, propagation, and growth of flames holes on the stoichiometric surface using edge flame dynamics. The boundary separating the flame from the quenched region is modeled using a progress variable defined on the moving stoichiometric surface that is embedded in the three-dimensional space using an extension algorithm. This Cartesian problem is solved using a high-order finite-volume WENO method extended to this nonconservative problem. This algorithm can track the dynamics of flame holes in a turbulent reacting-shear layer and model flame liftoff without requiring full chemistry calculations.

Using a local low rank plus sparse reconstruction to accelerate dynamic hyperpolarized 13C imaging using the bSSFP sequence

NASA Astrophysics Data System (ADS)

Milshteyn, Eugene; von Morze, Cornelius; Reed, Galen D.; Shang, Hong; Shin, Peter J.; Larson, Peder E. Z.; Vigneron, Daniel B.

2018-05-01

Acceleration of dynamic 2D (T2 Mapping) and 3D hyperpolarized 13C MRI acquisitions using the balanced steady-state free precession sequence was achieved with a specialized reconstruction method, based on the combination of low rank plus sparse and local low rank reconstructions. Methods were validated using both retrospectively and prospectively undersampled in vivo data from normal rats and tumor-bearing mice. Four-fold acceleration of 1-2 mm isotropic 3D dynamic acquisitions with 2-5 s temporal resolution and two-fold acceleration of 0.25-1 mm2 2D dynamic acquisitions was achieved. This enabled visualization of the biodistribution of [2-13C]pyruvate, [1-13C]lactate, [13C, 15N2]urea, and HP001 within heart, kidneys, vasculature, and tumor, as well as calculation of high resolution T2 maps.

Drivers of forest cover dynamics in smallholder farming systems: the case of northwestern Vietnam.

PubMed

Jadin, Isaline; Vanacker, Veerle; Hoang, Huong Thi Thu

2013-04-01

The national-scale forest recovery of Vietnam started in the early 1990s and is associated with a shift from net deforestation to net reforestation. Large disparities in forest cover dynamics are, however, observed at the local scale. This study aims to unravel the mechanisms driving forest cover change for a mountainous region located in northwest Vietnam. Statistical analyses were used to explore the association between forest cover change and household characteristics. In Sa Pa district, deforestation rates are decreasing, but forest degradation continues at similar rates. Deforestation is not necessarily associated with impoverished ethnic communities or high levels of subsistence farming, and the largest forest cover dynamics are found in villages with the best socio-economic conditions. Our empirical study does not provide strong evidence of a dominant role of agriculture in forest cover dynamics. It shows that empirical studies on local-scale forest dynamics remain important to unravel the complexity of human-environment interactions.

Dynamic heterogeneities and non-Gaussian behavior in two-dimensional randomly confined colloidal fluids

NASA Astrophysics Data System (ADS)

Schnyder, Simon K.; Skinner, Thomas O. E.; Thorneywork, Alice L.; Aarts, Dirk G. A. L.; Horbach, Jürgen; Dullens, Roel P. A.

2017-03-01

A binary mixture of superparamagnetic colloidal particles is confined between glass plates such that the large particles become fixed and provide a two-dimensional disordered matrix for the still mobile small particles, which form a fluid. By varying fluid and matrix area fractions and tuning the interactions between the superparamagnetic particles via an external magnetic field, different regions of the state diagram are explored. The mobile particles exhibit delocalized dynamics at small matrix area fractions and localized motion at high matrix area fractions, and the localization transition is rounded by the soft interactions [T. O. E. Skinner et al., Phys. Rev. Lett. 111, 128301 (2013), 10.1103/PhysRevLett.111.128301]. Expanding on previous work, we find the dynamics of the tracers to be strongly heterogeneous and show that molecular dynamics simulations of an ideal gas confined in a fixed matrix exhibit similar behavior. The simulations show how these soft interactions make the dynamics more heterogeneous compared to the disordered Lorentz gas and lead to strong non-Gaussian fluctuations.

A biophysical model of dynamic balancing of excitation and inhibition in fast oscillatory large-scale networks

PubMed Central

Sotiropoulos, Stamatios N.; Brookes, Matthew J.; Woolrich, Mark W.

2018-01-01

Over long timescales, neuronal dynamics can be robust to quite large perturbations, such as changes in white matter connectivity and grey matter structure through processes including learning, aging, development and certain disease processes. One possible explanation is that robust dynamics are facilitated by homeostatic mechanisms that can dynamically rebalance brain networks. In this study, we simulate a cortical brain network using the Wilson-Cowan neural mass model with conduction delays and noise, and use inhibitory synaptic plasticity (ISP) to dynamically achieve a spatially local balance between excitation and inhibition. Using MEG data from 55 subjects we find that ISP enables us to simultaneously achieve high correlation with multiple measures of functional connectivity, including amplitude envelope correlation and phase locking. Further, we find that ISP successfully achieves local E/I balance, and can consistently predict the functional connectivity computed from real MEG data, for a much wider range of model parameters than is possible with a model without ISP. PMID:29474352

Regulation of branching dynamics by axon-intrinsic asymmetries in Tyrosine Kinase Receptor signaling

PubMed Central

Zschätzsch, Marlen; Oliva, Carlos; Langen, Marion; De Geest, Natalie; Özel, Mehmet Neset; Williamson, W Ryan; Lemon, William C; Soldano, Alessia; Munck, Sebastian; Hiesinger, P Robin; Sanchez-Soriano, Natalia; Hassan, Bassem A

2014-01-01

Axonal branching allows a neuron to connect to several targets, increasing neuronal circuit complexity. While axonal branching is well described, the mechanisms that control it remain largely unknown. We find that in the Drosophila CNS branches develop through a process of excessive growth followed by pruning. In vivo high-resolution live imaging of developing brains as well as loss and gain of function experiments show that activation of Epidermal Growth Factor Receptor (EGFR) is necessary for branch dynamics and the final branching pattern. Live imaging also reveals that intrinsic asymmetry in EGFR localization regulates the balance between dynamic and static filopodia. Elimination of signaling asymmetry by either loss or gain of EGFR function results in reduced dynamics leading to excessive branch formation. In summary, we propose that the dynamic process of axon branch development is mediated by differential local distribution of signaling receptors. DOI: http://dx.doi.org/10.7554/eLife.01699.001 PMID:24755286

Automated sequence-specific protein NMR assignment using the memetic algorithm MATCH.

PubMed

Volk, Jochen; Herrmann, Torsten; Wüthrich, Kurt

2008-07-01

MATCH (Memetic Algorithm and Combinatorial Optimization Heuristics) is a new memetic algorithm for automated sequence-specific polypeptide backbone NMR assignment of proteins. MATCH employs local optimization for tracing partial sequence-specific assignments within a global, population-based search environment, where the simultaneous application of local and global optimization heuristics guarantees high efficiency and robustness. MATCH thus makes combined use of the two predominant concepts in use for automated NMR assignment of proteins. Dynamic transition and inherent mutation are new techniques that enable automatic adaptation to variable quality of the experimental input data. The concept of dynamic transition is incorporated in all major building blocks of the algorithm, where it enables switching between local and global optimization heuristics at any time during the assignment process. Inherent mutation restricts the intrinsically required randomness of the evolutionary algorithm to those regions of the conformation space that are compatible with the experimental input data. Using intact and artificially deteriorated APSY-NMR input data of proteins, MATCH performed sequence-specific resonance assignment with high efficiency and robustness.

High dynamic range algorithm based on HSI color space

NASA Astrophysics Data System (ADS)

Zhang, Jiancheng; Liu, Xiaohua; Dong, Liquan; Zhao, Yuejin; Liu, Ming

2014-10-01

This paper presents a High Dynamic Range algorithm based on HSI color space. To keep hue and saturation of original image and conform to human eye vision effect is the first problem, convert the input image data to HSI color space which include intensity dimensionality. To raise the speed of the algorithm is the second problem, use integral image figure out the average of every pixel intensity value under a certain scale, as local intensity component of the image, and figure out detail intensity component. To adjust the overall image intensity is the third problem, we can get an S type curve according to the original image information, adjust the local intensity component according to the S type curve. To enhance detail information is the fourth problem, adjust the detail intensity component according to the curve designed in advance. The weighted sum of local intensity component after adjusted and detail intensity component after adjusted is final intensity. Converting synthetic intensity and other two dimensionality to output color space can get final processed image.

Optimal forwarding ratio on dynamical networks with heterogeneous mobility

NASA Astrophysics Data System (ADS)

Gan, Yu; Tang, Ming; Yang, Hanxin

2013-05-01

Since the discovery of non-Poisson statistics of human mobility trajectories, more attention has been paid to understand the role of these patterns in different dynamics. In this study, we first introduce the heterogeneous mobility of mobile agents into dynamical networks, and then investigate packet forwarding strategy on the heterogeneous dynamical networks. We find that the faster speed and the higher proportion of high-speed agents can enhance the network throughput and reduce the mean traveling time in random forwarding. A hierarchical structure in the dependence of high-speed is observed: the network throughput remains unchanged at small and large high-speed value. It is also interesting to find that a slightly preferential forwarding to high-speed agents can maximize the network capacity. Through theoretical analysis and numerical simulations, we show that the optimal forwarding ratio stems from the local structural heterogeneity of low-speed agents.

Localized analysis of paint-coat drying using dynamic speckle interferometry

NASA Astrophysics Data System (ADS)

Sierra-Sosa, Daniel; Tebaldi, Myrian; Grumel, Eduardo; Rabal, Hector; Elmaghraby, Adel

2018-07-01

The paint-coating is part of several industrial processes, including the automotive industry, architectural coatings, machinery and appliances. These paint-coatings must comply with high quality standards, for this reason evaluation techniques from paint-coatings are in constant development. One important factor from the paint-coating process is the drying, as it has influence on the quality of final results. In this work we present an assessment technique based on the optical dynamic speckle interferometry, this technique allows for the temporal activity evaluation of the paint-coating drying process, providing localized information from drying. This localized information is relevant in order to address the drying homogeneity, optimal drying, and quality control. The technique relies in the definition of a new temporal history of the speckle patterns to obtain the local activity; this information is then clustered to provide a convenient indicative of different drying process stages. The experimental results presented were validated using the gravimetric drying curves

Local alignment vectors reveal cancer cell-induced ECM fiber remodeling dynamics

PubMed Central

Lee, Byoungkoo; Konen, Jessica; Wilkinson, Scott; Marcus, Adam I.; Jiang, Yi

2017-01-01

Invasive cancer cells interact with the surrounding extracellular matrix (ECM), remodeling ECM fiber network structure by condensing, degrading, and aligning these fibers. We developed a novel local alignment vector analysis method to quantitatively measure collagen fiber alignment as a vector field using Circular Statistics. This method was applied to human non-small cell lung carcinoma (NSCLC) cell lines, embedded as spheroids in a collagen gel. Collagen remodeling was monitored using second harmonic generation imaging under normal conditions and when the LKB1-MARK1 pathway was disrupted through RNAi-based approaches. The results showed that inhibiting LKB1 or MARK1 in NSCLC increases the collagen fiber alignment and captures outward alignment vectors from the tumor spheroid, corresponding to high invasiveness of LKB1 mutant cancer cells. With time-lapse imaging of ECM micro-fiber morphology, the local alignment vector can measure the dynamic signature of invasive cancer cell activity and cell-migration-induced ECM and collagen remodeling and realigning dynamics. PMID:28045069

Epicenters of dynamic connectivity in the adaptation of the ventral visual system.

PubMed

Prčkovska, Vesna; Huijbers, Willem; Schultz, Aaron; Ortiz-Teran, Laura; Peña-Gomez, Cleofe; Villoslada, Pablo; Johnson, Keith; Sperling, Reisa; Sepulcre, Jorge

2017-04-01

Neuronal responses adapt to familiar and repeated sensory stimuli. Enhanced synchrony across wide brain systems has been postulated as a potential mechanism for this adaptation phenomenon. Here, we used recently developed graph theory methods to investigate hidden connectivity features of dynamic synchrony changes during a visual repetition paradigm. Particularly, we focused on strength connectivity changes occurring at local and distant brain neighborhoods. We found that connectivity reorganization in visual modal cortex-such as local suppressed connectivity in primary visual areas and distant suppressed connectivity in fusiform areas-is accompanied by enhanced local and distant connectivity in higher cognitive processing areas in multimodal and association cortex. Moreover, we found a shift of the dynamic functional connections from primary-visual-fusiform to primary-multimodal/association cortex. These findings suggest that repetition-suppression is made possible by reorganization of functional connectivity that enables communication between low- and high-order areas. Hum Brain Mapp 38:1965-1976, 2017. © 2017 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Effects of a cognitive dual task on variability and local dynamic stability in sustained repetitive arm movements using principal component analysis: a pilot study.

PubMed

Longo, Alessia; Federolf, Peter; Haid, Thomas; Meulenbroek, Ruud

2018-06-01

In many daily jobs, repetitive arm movements are performed for extended periods of time under continuous cognitive demands. Even highly monotonous tasks exhibit an inherent motor variability and subtle fluctuations in movement stability. Variability and stability are different aspects of system dynamics, whose magnitude may be further affected by a cognitive load. Thus, the aim of the study was to explore and compare the effects of a cognitive dual task on the variability and local dynamic stability in a repetitive bimanual task. Thirteen healthy volunteers performed the repetitive motor task with and without a concurrent cognitive task of counting aloud backwards in multiples of three. Upper-body 3D kinematics were collected and postural reconfigurations-the variability related to the volunteer's postural change-were determined through a principal component analysis-based procedure. Subsequently, the most salient component was selected for the analysis of (1) cycle-to-cycle spatial and temporal variability, and (2) local dynamic stability as reflected by the largest Lyapunov exponent. Finally, end-point variability was evaluated as a control measure. The dual cognitive task proved to increase the temporal variability and reduce the local dynamic stability, marginally decrease endpoint variability, and substantially lower the incidence of postural reconfigurations. Particularly, the latter effect is considered to be relevant for the prevention of work-related musculoskeletal disorders since reduced variability in sustained repetitive tasks might increase the risk of overuse injuries.

Numerical investigations with WRF about atmospheric features leading to heavy precipitation and flood events over the Central Andes' complex topography

NASA Astrophysics Data System (ADS)

Zamuriano, Marcelo; Brönnimann, Stefan

2017-04-01

It's known that some extremes such as heavy rainfalls, flood events, heatwaves and droughts depend largely on the atmospheric circulation and local features. Bolivia is no exception and while the large scale dynamics over the Amazon has been largely investigated, the local features driven by the Andes Cordillera and the Altiplano is still poorly documented. New insights on the regional atmospheric dynamics preceding heavy precipitation and flood events over the complex topography of the Andes-Amazon interface are added through numerical investigations of several case events: flash flood episodes over La Paz city and the extreme 2014 flood in south-western Amazon basin. Large scale atmospheric water transport is dynamically downscaled in order to take into account the complex topography forcing and local features as modulators of these events. For this purpose, a series of high resolution numerical experiments with the WRF-ARW model is conducted using various global datasets and parameterizations. While several mechanisms have been suggested to explain the dynamics of these episodes, they have not been tested yet through numerical modelling experiments. The simulations captures realistically the local water transport and the terrain influence over atmospheric circulation, even though the precipitation intensity is in general unrealistic. Nevertheless, the results show that Dynamical Downscaling over the tropical Andes' complex terrain provides useful meteorological data for a variety of studies and contributes to a better understanding of physical processes involved in the configuration of these events.

Local Stability of the Trunk in Patients with Degenerative Cerebellar Ataxia During Walking.

PubMed

Chini, Giorgia; Ranavolo, Alberto; Draicchio, Francesco; Casali, Carlo; Conte, Carmela; Martino, Giovanni; Leonardi, Luca; Padua, Luca; Coppola, Gianluca; Pierelli, Francesco; Serrao, Mariano

2017-02-01

This study aims to evaluate trunk local stability in a group of patients with degenerative primary cerebellar ataxia and to correlate it with spatio-temporal parameters, clinical variables, and history of falls. Sixteen patients affected by degenerative cerebellar ataxia and 16 gender- and age-matched healthy adults were studied by means of an inertial sensor to measure trunk kinematics and spatio-temporal parameters during over-ground walking. Trunk local dynamic stability was quantified by the maximum Lyapunov exponent with short data series of the acceleration data. According to this index, low values indicate more stable trunk dynamics, while high values denote less stable trunk dynamics. Disease severity was assessed by means of International Cooperative Ataxia Rating Scale (ICARS) according to which higher values correspond to more severe disease, while lower values correspond to less severe disease.Patients displayed a higher short-term maximum Lyapunov exponent than controls in all three spatial planes, which was correlated with the age, onset of the disease, and history of falls. Furthermore, the maximum Lyapunov exponent was negatively correlated with ICARS balance, ICARS posture, and ICARS total scores.These findings indicate that trunk local stability during gait is lower in patients with cerebellar degenerative ataxia than that in healthy controls and that this may increase the risk of falls. Local dynamic stability of the trunk seems to be an important aspect in patients with ataxia and could be a useful tool in the evaluation of rehabilitative and pharmacological treatment outcomes.

Study on UKF based federal integrated navigation for high dynamic aviation

NASA Astrophysics Data System (ADS)

Zhao, Gang; Shao, Wei; Chen, Kai; Yan, Jie

2011-08-01

High dynamic aircraft is a very attractive new generation vehicles, in which provides near space aviation with large flight envelope both speed and altitude, for example the hypersonic vehicles. The complex flight environments for high dynamic vehicles require high accuracy and stability navigation scheme. Since the conventional Strapdown Inertial Navigation System (SINS) and Global Position System (GPS) federal integrated scheme based on EKF (Extended Kalman Filter) is invalidation in GPS single blackout situation because of high speed flight, a new high precision and stability integrated navigation approach is presented in this paper, in which the SINS, GPS and Celestial Navigation System (CNS) is combined as a federal information fusion configuration based on nonlinear Unscented Kalman Filter (UKF) algorithm. Firstly, the new integrated system state error is modeled. According to this error model, the SINS system is used as the navigation solution mathematic platform. The SINS combine with GPS constitute one error estimation filter subsystem based on UKF to obtain local optimal estimation, and the SINS combine with CNS constitute another error estimation subsystem. A non-reset federated configuration filter based on partial information is proposed to fuse two local optimal estimations to get global optimal error estimation, and the global optimal estimation is used to correct the SINS navigation solution. The χ 2 fault detection method is used to detect the subsystem fault, and the fault subsystem is isolation through fault interval to protect system away from the divergence. The integrated system takes advantages of SINS, GPS and CNS to an immense improvement for high accuracy and reliably high dynamic navigation application. Simulation result shows that federated fusion of using GPS and CNS to revise SINS solution is reasonable and availably with good estimation performance, which are satisfied with the demands of high dynamic flight navigation. The UKF is superior than EKF based integrated scheme, in which has smaller estimation error and quickly convergence rate.

Velocity Gradient Power Functional for Brownian Dynamics.

PubMed

de Las Heras, Daniel; Schmidt, Matthias

2018-01-12

We present an explicit and simple approximation for the superadiabatic excess (over ideal gas) free power functional, admitting the study of the nonequilibrium dynamics of overdamped Brownian many-body systems. The functional depends on the local velocity gradient and is systematically obtained from treating the microscopic stress distribution as a conjugate field. The resulting superadiabatic forces are beyond dynamical density functional theory and are of a viscous nature. Their high accuracy is demonstrated by comparison to simulation results.

Velocity Gradient Power Functional for Brownian Dynamics

NASA Astrophysics Data System (ADS)

de las Heras, Daniel; Schmidt, Matthias

2018-01-01

We present an explicit and simple approximation for the superadiabatic excess (over ideal gas) free power functional, admitting the study of the nonequilibrium dynamics of overdamped Brownian many-body systems. The functional depends on the local velocity gradient and is systematically obtained from treating the microscopic stress distribution as a conjugate field. The resulting superadiabatic forces are beyond dynamical density functional theory and are of a viscous nature. Their high accuracy is demonstrated by comparison to simulation results.

Dynamical control of electron-phonon interactions with high-frequency light

NASA Astrophysics Data System (ADS)

Dutreix, C.; Katsnelson, M. I.

2017-01-01

This work addresses the one-dimensional problem of Bloch electrons when they are rapidly driven by a homogeneous time-periodic light and linearly coupled to vibrational modes. Starting from a generic time-periodic electron-phonon Hamiltonian, we derive a time-independent effective Hamiltonian that describes the stroboscopic dynamics up to the third order in the high-frequency limit. This yields nonequilibrium corrections to the electron-phonon coupling that are controllable dynamically via the driving strength. This shows in particular that local Holstein interactions in equilibrium are corrected by antisymmetric Peierls interactions out of equilibrium, as well as by phonon-assisted hopping processes that make the dynamical Wannier-Stark localization of Bloch electrons impossible. Subsequently, we revisit the Holstein polaron problem out of equilibrium in terms of effective Green's functions, and specify explicitly how the binding energy and effective mass of the polaron can be controlled dynamically. These tunable properties are reported within the weak- and strong-coupling regimes since both can be visited within the same material when varying the driving strength. This work provides some insight into controllable microscopic mechanisms that may be involved during the multicycle laser irradiations of organic molecular crystals in ultrafast pump-probe experiments, although it should also be suitable for realizations in shaken optical lattices of ultracold atoms.

Forest dynamics and its driving forces of sub-tropical forest in South China.

PubMed

Ma, Lei; Lian, Juyu; Lin, Guojun; Cao, Honglin; Huang, Zhongliang; Guan, Dongsheng

2016-03-04

Tree mortality and recruitment are key factors influencing forest dynamics, but the driving mechanisms of these processes remain unclear. To better understand these driving mechanisms, we studied forest dynamics over a 5-year period in a 20-ha sub-tropical forest in the Dinghushan Nature Reserve, South China. The goal was to identify determinants of tree mortality/recruitment at the local scale using neighborhood analyses on some locally dominant tree species. Results show that the study plot was more dynamic than some temperate and tropical forests in a comparison to large, long-term forest dynamics plots. Over the 5-year period, mortality rates ranged from 1.67 to 12.33% per year while recruitment rates ranged from 0 to 20.26% per year. Tree size had the most consistent effect on mortality across species. Recruitment into the ≥1-cm size class consistently occurred where local con-specific density was high. This suggests that recruitment may be limited by seed dispersal. Hetero-specific individuals also influenced recruitment significantly for some species. Canopy species had low recruitment into the ≥1-cm size class over the 5-year period. In conclusion, tree mortality and recruitment for sixteen species in this plot was likely limited by seed dispersal and density-dependence.

High Dynamic Velocity Range Particle Image Velocimetry Using Multiple Pulse Separation Imaging

PubMed Central

Persoons, Tim; O’Donovan, Tadhg S.

2011-01-01

The dynamic velocity range of particle image velocimetry (PIV) is determined by the maximum and minimum resolvable particle displacement. Various techniques have extended the dynamic range, however flows with a wide velocity range (e.g., impinging jets) still challenge PIV algorithms. A new technique is presented to increase the dynamic velocity range by over an order of magnitude. The multiple pulse separation (MPS) technique (i) records series of double-frame exposures with different pulse separations, (ii) processes the fields using conventional multi-grid algorithms, and (iii) yields a composite velocity field with a locally optimized pulse separation. A robust criterion determines the local optimum pulse separation, accounting for correlation strength and measurement uncertainty. Validation experiments are performed in an impinging jet flow, using laser-Doppler velocimetry as reference measurement. The precision of mean flow and turbulence quantities is significantly improved compared to conventional PIV, due to the increase in dynamic range. In a wide range of applications, MPS PIV is a robust approach to increase the dynamic velocity range without restricting the vector evaluation methods. PMID:22346564

Ion aggregation in high salt solutions. III. Computational vibrational spectroscopy of HDO in aqueous salt solutions

DOE Office of Scientific and Technical Information (OSTI.GOV)

Choi, Jun-Ho; Lim, Sohee; Chon, Bonghwan

The vibrational frequency, frequency fluctuation dynamics, and transition dipole moment of the O—D stretch mode of HDO molecule in aqueous solutions are strongly dependent on its local electrostatic environment and hydrogen-bond network structure. Therefore, the time-resolved vibrational spectroscopy the O—D stretch mode has been particularly used to investigate specific ion effects on water structure. Despite prolonged efforts to understand the interplay of O—D vibrational dynamics with local water hydrogen-bond network and ion aggregate structures in high salt solutions, still there exists a gap between theory and experiment due to a lack of quantitative model for accurately describing O—D stretch frequencymore » in high salt solutions. To fill this gap, we have performed numerical simulations of Raman scattering and IR absorption spectra of the O—D stretch mode of HDO in highly concentrated NaCl and KSCN solutions and compared them with experimental results. Carrying out extensive quantum chemistry calculations on not only water clusters but also ion-water clusters, we first developed a distributed vibrational solvatochromic charge model for the O—D stretch mode in aqueous salt solutions. Furthermore, the non-Condon effect on the vibrational transition dipole moment of the O—D stretch mode was fully taken into consideration with the charge response kernel that is non-local polarizability density. From the fluctuating O—D stretch mode frequencies and transition dipole vectors obtained from the molecular dynamics simulations, the O—D stretch Raman scattering and IR absorption spectra of HDO in salt solutions could be calculated. The polarization effect on the transition dipole vector of the O—D stretch mode is shown to be important and the asymmetric line shapes of the O—D stretch Raman scattering and IR absorption spectra of HDO especially in highly concentrated NaCl and KSCN solutions are in quantitative agreement with experimental results. We anticipate that this computational approach will be of critical use in interpreting linear and nonlinear vibrational spectroscopies of HDO molecule that is considered as an excellent local probe for monitoring local electrostatic and hydrogen-bonding environment in not just salt but also other confined and crowded solutions.« less

Periodically sheared 2D Yukawa systems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kovács, Anikó Zsuzsa; Hartmann, Peter; Center for Astrophysics, Space Physics and Engineering Research

2015-10-15

We present non-equilibrium molecular dynamics simulation studies on the dynamic (complex) shear viscosity of a 2D Yukawa system. We have identified a non-monotonic frequency dependence of the viscosity at high frequencies and shear rates, an energy absorption maximum (local resonance) at the Einstein frequency of the system at medium shear rates, an enhanced collective wave activity, when the excitation is near the plateau frequency of the longitudinal wave dispersion, and the emergence of significant configurational anisotropy at small frequencies and high shear rates.

Decay of Complex-Time Determinantal and Pfaffian Correlation Functionals in Lattices

NASA Astrophysics Data System (ADS)

Aza, N. J. B.; Bru, J.-B.; de Siqueira Pedra, W.

2018-04-01

We supplement the determinantal and Pfaffian bounds of Sims and Warzel (Commun Math Phys 347:903-931, 2016) for many-body localization of quasi-free fermions, by considering the high dimensional case and complex-time correlations. Our proof uses the analyticity of correlation functions via the Hadamard three-line theorem. We show that the dynamical localization for the one-particle system yields the dynamical localization for the many-point fermionic correlation functions, with respect to the Hausdorff distance in the determinantal case. In Sims and Warzel (2016), a stronger notion of decay for many-particle configurations was used but only at dimension one and for real times. Considering determinantal and Pfaffian correlation functionals for complex times is important in the study of weakly interacting fermions.

Local Voltage Control in Distribution Networks: A Game-Theoretic Perspective

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhou, Xinyang; Tian, Jie; Chen, Lijun

Inverter-based voltage regulation is gaining importance to alleviate emerging reliability and power-quality concerns related to distribution systems with high penetration of photovoltaic (PV) systems. This paper seeks contribution in the domain of reactive power compensation by establishing stability of local Volt/VAr controllers. In lieu of the approximate linear surrogate used in the existing work, the paper establishes existence and uniqueness of an equilibrium point using nonlinear AC power flow model. Key to this end is to consider a nonlinear dynamical system with non-incremental local Volt/VAr control, cast the Volt/VAr dynamics as a game, and leverage the fixed-point theorem as wellmore » as pertinent contraction mapping argument. Numerical examples are provided to complement the analytical results.« less

Local Voltage Control in Distribution Networks: A Game-Theoretic Perspective: Preprint

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhou, Xinyang; Tian, Jie; Chen, Lijun

Inverter-based voltage regulation is gaining importance to alleviate emerging reliability and power-quality concerns related to distribution systems with high penetration of photovoltaic (PV) systems. This paper seeks contribution in the domain of reactive power compensation by establishing stability of local Volt/VAr controllers. In lieu of the approximate linear surrogate used in the existing work, the paper establishes existence and uniqueness of an equilibrium point using nonlinear AC power flow model. Key to this end is to consider a nonlinear dynamical system with non-incremental local Volt/VAr control, cast the Volt/VAr dynamics as a game, and leverage the fixed-point theorem as wellmore » as pertinent contraction mapping argument. Numerical examples are provided to complement the analytical results.« less

Decay of Complex-Time Determinantal and Pfaffian Correlation Functionals in Lattices

NASA Astrophysics Data System (ADS)

Aza, N. J. B.; Bru, J.-B.; de Siqueira Pedra, W.

2018-06-01

We supplement the determinantal and Pfaffian bounds of Sims and Warzel (Commun Math Phys 347:903-931, 2016) for many-body localization of quasi-free fermions, by considering the high dimensional case and complex-time correlations. Our proof uses the analyticity of correlation functions via the Hadamard three-line theorem. We show that the dynamical localization for the one-particle system yields the dynamical localization for the many-point fermionic correlation functions, with respect to the Hausdorff distance in the determinantal case. In Sims and Warzel (2016), a stronger notion of decay for many-particle configurations was used but only at dimension one and for real times. Considering determinantal and Pfaffian correlation functionals for complex times is important in the study of weakly interacting fermions.

Dengue Vector Dynamics (Aedes aegypti) Influenced by Climate and Social Factors in Ecuador: Implications for Targeted Control

PubMed Central

Stewart Ibarra, Anna M.; Ryan, Sadie J.; Beltrán, Efrain; Mejía, Raúl; Silva, Mercy; Muñoz, Ángel

2013-01-01

Background Dengue fever, a mosquito-borne viral disease, is now the fastest spreading tropical disease globally. Previous studies indicate that climate and human behavior interact to influence dengue virus and vector (Aedes aegypti) population dynamics; however, the relative effects of these variables depends on local ecology and social context. We investigated the roles of climate and socio-ecological factors on Ae. aegypti population dynamics in Machala, a city in southern coastal Ecuador where dengue is hyper-endemic. Methods/Principal findings We studied two proximate urban localities where we monitored weekly Ae. aegypti oviposition activity (Nov. 2010-June 2011), conducted seasonal pupal surveys, and surveyed household to identify dengue risk factors. The results of this study provide evidence that Ae. aegypti population dynamics are influenced by social risk factors that vary by season and lagged climate variables that vary by locality. Best-fit models to predict the presence of Ae. aegypti pupae included parameters for household water storage practices, access to piped water, the number of households per property, condition of the house and patio, and knowledge and perceptions of dengue. Rainfall and minimum temperature were significant predictors of oviposition activity, although the effect of rainfall varied by locality due to differences in types of water storage containers. Conclusions These results indicate the potential to reduce the burden of dengue in this region by conducting focused vector control interventions that target high-risk households and containers in each season and by developing predictive models using climate and non-climate information. These findings provide the region's public health sector with key information for conducting time and location-specific vector control campaigns, and highlight the importance of local socio-ecological studies to understand dengue dynamics. See Text S1 for an executive summary in Spanish. PMID:24324542

Dilatancy of Shear Transformations in a Colloidal Glass

NASA Astrophysics Data System (ADS)

Lu, Y. Z.; Jiang, M. Q.; Lu, X.; Qin, Z. X.; Huang, Y. J.; Shen, J.

2018-01-01

Shear transformations, as fundamental rearrangement events operating in local regions, hold the key of plastic flow of amorphous solids. Despite their importance, the dynamic features of shear transformations are far from clear, which is the focus of the present study. Here, we use a colloidal glass under shear as the prototype to directly observe the shear-transformation events in real space. By tracing the colloidal-particle rearrangements, we quantitatively determine two basic properties of shear transformations: local shear strain and dilatation (or free volume). It is revealed that the local free volume undergoes a significantly temporary increase prior to shear transformations, eventually leading to a jump of local shear strain. We clearly demonstrate that shear transformations have no memory of the initial free volume of local regions. Instead, their emergence strongly depends on the dilatancy ability of these local regions, i.e., the dynamic creation of free volume. More specifically, the particles processing the high dilatancy ability directly participate in subsequent shear transformations. These results experimentally enrich Argon's statement about the dilatancy nature of shear transformations and also shed insight into the structural origin of amorphous plasticity.

A Localized Ensemble Kalman Smoother

NASA Technical Reports Server (NTRS)

Butala, Mark D.

2012-01-01

Numerous geophysical inverse problems prove difficult because the available measurements are indirectly related to the underlying unknown dynamic state and the physics governing the system may involve imperfect models or unobserved parameters. Data assimilation addresses these difficulties by combining the measurements and physical knowledge. The main challenge in such problems usually involves their high dimensionality and the standard statistical methods prove computationally intractable. This paper develops and addresses the theoretical convergence of a new high-dimensional Monte-Carlo approach called the localized ensemble Kalman smoother.

Kinks and vortex-twister dynamics in type-II superconductors

NASA Astrophysics Data System (ADS)

D'Anna, G.; Benoit, W.; Sémoroz, A.; Berseth, V.

1997-02-01

We report magneto-optical observations of moving helicoidal vortex structures in high purity YBa 2Cu 3O 7-δ single cyrstals. We found that the dynamics of these ‘vortex-twisters’ is mainly controlled by localized instabilities (kinks) which stream along the helices. The kinks allow the motion of the twisters, or the annihilation of twisters with opposite chirality.

The Utility of the Dynamic Indicators of Basic Early Literacy Skills (DIBELS) in Predicting Reading Achievement

ERIC Educational Resources Information Center

Echols, Julie M. Young

2010-01-01

Reading proficiency is the goal of many local and national reading initiatives. A key component of these initiatives is accurate and reliable reading assessment. In this high-stakes testing arena, the Dynamic Indicators of Basic Early Literacy Skills (DIBELS) has emerged as a preferred measure for identification of students at risk for reading…

Communication Dynamics of Blog Networks

NASA Astrophysics Data System (ADS)

Goldberg, Mark; Kelley, Stephen; Magdon-Ismail, Malik; Mertsalov, Konstantin; Wallace, William (Al)

We study the communication dynamics of Blog networks, focusing on the Russian section of LiveJournal as a case study. Communication (blogger-to-blogger links) in such online communication networks is very dynamic: over 60% of the links in the network are new from one week to the next, though the set of bloggers remains approximately constant. Two fundamental questions are: (i) what models adequately describe such dynamic communication behavior; and (ii) how does one detect the phase transitions, i.e. the changes that go beyond the standard high-level dynamics? We approach these questions through the notion of stable statistics. We give strong experimental evidence to the fact that, despite the extreme amount of communication dynamics, several aggregate statistics are remarkably stable. We use stable statistics to test our models of communication dynamics postulating that any good model should produce values for these statistics which are both stable and close to the observed ones. Stable statistics can also be used to identify phase transitions, since any change in a normally stable statistic indicates a substantial change in the nature of the communication dynamics. We describe models of the communication dynamics in large social networks based on the principle of locality of communication: a node's communication energy is spent mostly within its own "social area," the locality of the node.

Computational Fluid Dynamics Simulations of Hemodynamics in Plaque Erosion

PubMed Central

Campbell, Ian C.; Timmins, Lucas H.; Giddens, Don P.; Virmani, Renu; Veneziani, Alessandro; Rab, S. Tanveer; Samady, Habib; McDaniel, Michael C.; Finn, Aloke V.; Taylor, W. Robert; Oshinski, John N.

2013-01-01

Purpose We investigated whether local hemodynamics were associated with sites of plaque erosion and hypothesized that patients with plaque erosion have locally elevated WSS magnitude in regions where erosion has occurred. Methods We generated 3D, patient-specific models of coronary arteries from biplane angiographic images in 3 human patients with plaque erosion diagnosed by optical coherence tomography (OCT). Using computational fluid dynamics, we simulated pulsatile blood flow and calculated both wall shear stress (WSS) and oscillatory shear index (OSI). We also investigated anatomic features of plaque erosion sites by examining branching and local curvature in x-ray angiograms of barium-perfused autopsy hearts. Results Neither high nor low magnitudes of mean WSS were associated with sites of plaque erosion. OSI and local curvature were also not associated with erosion. Anatomically, 8 of 13 hearts had a nearby bifurcation upstream of the site of plaque erosion. Conclusions This study provides preliminary evidence that neither hemodynamics nor anatomy are predictors of plaque erosion, based upon a very unique dataset. Our sample sizes are small, but this dataset suggests that high magnitudes of wall shear stress, one potential mechanism for inducing plaque erosion, are not necessary for erosion to occur. PMID:24223678

Dynamical, structural and chemical heterogeneities in a binary metallic glass-forming liquid

NASA Astrophysics Data System (ADS)

Puosi, F.; Jakse, N.; Pasturel, A.

2018-04-01

As it approaches the glass transition, particle motion in liquids becomes highly heterogeneous and regions with virtually no mobility coexist with liquid-like domains. This complex dynamic is believed to be responsible for different phenomena including non-exponential relaxation and the breakdown of the Stokes-Einstein relation. Understanding the relationships between dynamical heterogeneities and local structure in metallic liquids and glasses is a major scientific challenge. Here we use classical molecular dynamics simulations to study the atomic dynamics and microscopic structure of Cu50Zr50 alloy in the supercooling regime. Dynamical heterogeneities are identified via an isoconfigurational analysis. We demonstrate the transition from isolated to clustering low mobility with decreasing temperature. These slow clusters, whose sizes grow upon cooling, are also associated with concentration fluctuations, characterized by a Zr-enriched phase, with a composition CuZr2 . In addition, a structural analysis of slow clusters based on Voronoi tessellation evidences an increase with respect of the bulk system of the fraction of Cu atoms having a local icosahedral order. These results are in agreement with the consolidated scenario of the relevant role played by icosahedral order in the dynamic slowing-down in supercooled metal alloys.

Topological solitons in helical strings

NASA Astrophysics Data System (ADS)

Nisoli, Cristiano; Balatsky, Alexander V.

2015-06-01

The low-energy physics of (quasi)degenerate one-dimensional systems is typically understood as the particle-like dynamics of kinks between stable, ordered structures. Such dynamics, we show, becomes highly nontrivial when the ground states are topologically constrained: a dynamics of the domains rather than on the domains which the kinks separate. Motivated by recently reported observations of charged polymers physio-adsorbed on nanotubes, we study kinks between helical structures of a string wrapping around a cylinder. While their motion cannot be disentangled from domain dynamics, and energy and momentum is not concentrated in the solitons, the dynamics of the domains can be folded back into a particle-like description of the local excitations.

Impact of the pedestal plasma density on dynamics of edge localized mode crashes and energy loss scaling

DOE PAGES

Xu, X. Q.; Ma, J. F.; Li, G. Q.

2014-12-29

The latest BOUT++ studies show an emerging understanding of dynamics of edge localized mode(ELM) crashes and the consistent collisionality scaling of ELMenergy losses with the world multi-tokamak database. A series of BOUT++ simulations are conducted to investigate the scaling characteristics of the ELMenergy losses vs collisionality via a density scan. Moreover, the linear results demonstrate that as the pedestal collisionality decreases, the growth rate of the peeling-ballooning modes decreases for high n but increases for low n (1 < n < 5), therefore the width of the growth rate spectrum γ(n) becomes narrower and the peak growth shifts to lowermore » n. For nonlinear BOUT++ simulations show a two-stage process of ELM crash evolution of (i) initial bursts of pressure blob and void creation and (ii) inward void propagation. The inward void propagation stirs the top of pedestal plasma and yields an increasing ELM size with decreasing collisionality after a series of micro-bursts. The pedestal plasma density plays a major role in determining the ELMenergy loss through its effect on the edge bootstrap current and ion diamagnetic stabilization. Finally, the critical trend emerges as a transition (1) linearly from ballooning-dominated states at high collisionality to peeling-dominated states at low collisionality with decreasing density and (2) nonlinearly from turbulence spreading dynamics at high collisionality into avalanche-like dynamics at low collisionality.« less

Job Flows and Labor Dynamics in the U.S. Rust Belt.

ERIC Educational Resources Information Center

Faberman, R. Jason

2002-01-01

From 1992-2000, high employment and wage growth occurred together with low unemployment in a number of U.S. Rust Belt metropolitan areas. Localities with these characteristics had larger and younger companies in environments with high rates of both job creation and job destruction. (Contains 24 references.) (Author)

Clustering Effect on the Dynamics in a Spatial Rock-Paper-Scissors System

NASA Astrophysics Data System (ADS)

Hashimoto, Tsuyoshi; Sato, Kazunori; Ichinose, Genki; Miyazaki, Rinko; Tainaka, Kei-ichi

2018-01-01

The lattice dynamics for rock-paper-scissors games is related to population theories in ecology. In most cases, simulations are performed by local and global interactions. It is known in the former case that the dynamics is usually stable. We find two types of non-random distributions in the stationary state. One is a cluster formation of endangered species: when the density of a species approaches zero, its clumping degree diverges to infinity. The other is the strong aggregations of high-density species. Such spatial pattern formations play important roles in population dynamics.

Hierarchical cluster-based partial least squares regression (HC-PLSR) is an efficient tool for metamodelling of nonlinear dynamic models.

PubMed

Tøndel, Kristin; Indahl, Ulf G; Gjuvsland, Arne B; Vik, Jon Olav; Hunter, Peter; Omholt, Stig W; Martens, Harald

2011-06-01

Deterministic dynamic models of complex biological systems contain a large number of parameters and state variables, related through nonlinear differential equations with various types of feedback. A metamodel of such a dynamic model is a statistical approximation model that maps variation in parameters and initial conditions (inputs) to variation in features of the trajectories of the state variables (outputs) throughout the entire biologically relevant input space. A sufficiently accurate mapping can be exploited both instrumentally and epistemically. Multivariate regression methodology is a commonly used approach for emulating dynamic models. However, when the input-output relations are highly nonlinear or non-monotone, a standard linear regression approach is prone to give suboptimal results. We therefore hypothesised that a more accurate mapping can be obtained by locally linear or locally polynomial regression. We present here a new method for local regression modelling, Hierarchical Cluster-based PLS regression (HC-PLSR), where fuzzy C-means clustering is used to separate the data set into parts according to the structure of the response surface. We compare the metamodelling performance of HC-PLSR with polynomial partial least squares regression (PLSR) and ordinary least squares (OLS) regression on various systems: six different gene regulatory network models with various types of feedback, a deterministic mathematical model of the mammalian circadian clock and a model of the mouse ventricular myocyte function. Our results indicate that multivariate regression is well suited for emulating dynamic models in systems biology. The hierarchical approach turned out to be superior to both polynomial PLSR and OLS regression in all three test cases. The advantage, in terms of explained variance and prediction accuracy, was largest in systems with highly nonlinear functional relationships and in systems with positive feedback loops. HC-PLSR is a promising approach for metamodelling in systems biology, especially for highly nonlinear or non-monotone parameter to phenotype maps. The algorithm can be flexibly adjusted to suit the complexity of the dynamic model behaviour, inviting automation in the metamodelling of complex systems.

Hierarchical Cluster-based Partial Least Squares Regression (HC-PLSR) is an efficient tool for metamodelling of nonlinear dynamic models

PubMed Central

2011-01-01

Background Deterministic dynamic models of complex biological systems contain a large number of parameters and state variables, related through nonlinear differential equations with various types of feedback. A metamodel of such a dynamic model is a statistical approximation model that maps variation in parameters and initial conditions (inputs) to variation in features of the trajectories of the state variables (outputs) throughout the entire biologically relevant input space. A sufficiently accurate mapping can be exploited both instrumentally and epistemically. Multivariate regression methodology is a commonly used approach for emulating dynamic models. However, when the input-output relations are highly nonlinear or non-monotone, a standard linear regression approach is prone to give suboptimal results. We therefore hypothesised that a more accurate mapping can be obtained by locally linear or locally polynomial regression. We present here a new method for local regression modelling, Hierarchical Cluster-based PLS regression (HC-PLSR), where fuzzy C-means clustering is used to separate the data set into parts according to the structure of the response surface. We compare the metamodelling performance of HC-PLSR with polynomial partial least squares regression (PLSR) and ordinary least squares (OLS) regression on various systems: six different gene regulatory network models with various types of feedback, a deterministic mathematical model of the mammalian circadian clock and a model of the mouse ventricular myocyte function. Results Our results indicate that multivariate regression is well suited for emulating dynamic models in systems biology. The hierarchical approach turned out to be superior to both polynomial PLSR and OLS regression in all three test cases. The advantage, in terms of explained variance and prediction accuracy, was largest in systems with highly nonlinear functional relationships and in systems with positive feedback loops. Conclusions HC-PLSR is a promising approach for metamodelling in systems biology, especially for highly nonlinear or non-monotone parameter to phenotype maps. The algorithm can be flexibly adjusted to suit the complexity of the dynamic model behaviour, inviting automation in the metamodelling of complex systems. PMID:21627852

Event detection and localization for small mobile robots using reservoir computing.

PubMed

Antonelo, E A; Schrauwen, B; Stroobandt, D

2008-08-01

Reservoir Computing (RC) techniques use a fixed (usually randomly created) recurrent neural network, or more generally any dynamic system, which operates at the edge of stability, where only a linear static readout output layer is trained by standard linear regression methods. In this work, RC is used for detecting complex events in autonomous robot navigation. This can be extended to robot localization tasks which are solely based on a few low-range, high-noise sensory data. The robot thus builds an implicit map of the environment (after learning) that is used for efficient localization by simply processing the input stream of distance sensors. These techniques are demonstrated in both a simple simulation environment and in the physically realistic Webots simulation of the commercially available e-puck robot, using several complex and even dynamic environments.

Data Analysis and Non-local Parametrization Strategies for Organized Atmospheric Convection

NASA Astrophysics Data System (ADS)

Brenowitz, Noah D.

The intrinsically multiscale nature of moist convective processes in the atmosphere complicates scientific understanding, and, as a result, current coarse-resolution climate models poorly represent convective variability in the tropics. This dissertation addresses this problem by 1) studying new cumulus convective closures in a pair of idealized models for tropical moist convection, and 2) developing innovative strategies for analyzing high-resolution numerical simulations of organized convection. The first two chapters of this dissertation revisit a historical controversy about the use of convective closures based on the large-scale wind field or moisture convergence. In the first chapter, a simple coarse resolution stochastic model for convective inhibition is designed which includes the non-local effects of wind-convergence on convective activity. This model is designed to replicate the convective dynamics of a typical coarse-resolution climate prediction model. The non-local convergence coupling is motivated by the phenomena of gregarious convection, whereby mesoscale convective systems emit gravity waves which can promote convection at a distant locations. Linearized analysis and nonlinear simulations show that this convergence coupling allows for increased interaction between cumulus convection and the large-scale circulation, but does not suffer from the deleterious behavior of traditional moisture-convergence closures. In the second chapter, the non-local convergence coupling idea is extended to an idealized stochastic multicloud model. This model allows for stochastic transitions between three distinct cloud types, and non-local convergence coupling is most beneficial when applied to the transition from shallow to deep convection. This is consistent with recent observational and numerical modeling evidence, and there is a growing body of work highlighting the importance of this transition in tropical meteorology. In a series of idealized Walker cell simulations, convergence coupling enhances the persistence of Kelvin wave analogs in dry regions of the domain while leaving the dynamics in moist regions largely unaltered. The final chapter of this dissertation presents a technique for analyzing the variability of a direct numerical simulation of Rayleigh-Benard convection at large aspect ratio, which is a basic prototype of convective organization. High resolution numerical models are an invaluable tool for studying atmospheric dynamics, but modern data analysis techniques struggle with the extreme size of the model outputs and the trivial symmetries of the underlying dynamical systems (e.g. shift-invariance). A new data analysis approach which is invariant to spatial symmetries is derived by combining a quasi-Lagrangian description of the data, time-lagged embedding, and manifold learning techniques. The quasi-Lagrangian description is obtained by a straightforward isothermal binning procedure, which compresses the data in a dynamically-aware fashion. A small number of orthogonal modes returned by this algorithm are able to explain the highly intermittent dynamics of the bulk heat transfer, as quantified by the Nusselt Number.

Local Dynamic Stability Associated with Load Carrying

PubMed Central

Lockhart, Thurmon E

2013-01-01

Objectives Load carrying tasks are recognized as one of the primary occupational factors leading to slip and fall injuries. Nevertheless, the mechanisms associated with load carrying and walking stability remain illusive. The objective of the current study was to apply local dynamic stability measure in walking while carrying a load, and to investigate the possible adaptive gait stability changes. Methods Current study involved 25 young adults in a biomechanics research laboratory. One tri-axial accelerometer was used to measure three-dimensional low back acceleration during continuous treadmill walking. Local dynamic stability was quantified by the maximum Lyapunov exponent (maxLE) from a nonlinear dynamics approach. Results Long term maxLE was found to be significant higher under load condition than no-load condition in all three reference axes, indicating the declined local dynamic stability associated with load carrying. Conclusion Current study confirmed the sensitivity of local dynamic stability measure in load carrying situation. It was concluded that load carrying tasks were associated with declined local dynamic stability, which may result in increased risk of fall accident. This finding has implications in preventing fall accidents associated with occupational load carrying. PMID:23515183

Quantum localization for a kicked rotor with accelerator mode islands.

PubMed

Iomin, A; Fishman, S; Zaslavsky, G M

2002-03-01

Dynamical localization of classical superdiffusion for the quantum kicked rotor is studied in the semiclassical limit. Both classical and quantum dynamics of the system become more complicated under the conditions of mixed phase space with accelerator mode islands. Recently, long time quantum flights due to the accelerator mode islands have been found. By exploration of their dynamics, it is shown here that the classical-quantum duality of the flights leads to their localization. The classical mechanism of superdiffusion is due to accelerator mode dynamics, while quantum tunneling suppresses the superdiffusion and leads to localization of the wave function. Coupling of the regular type dynamics inside the accelerator mode island structures to dynamics in the chaotic sea proves increasing the localization length. A numerical procedure and an analytical method are developed to obtain an estimate of the localization length which, as it is shown, has exponentially large scaling with the dimensionless Planck's constant (tilde)h<1 in the semiclassical limit. Conditions for the validity of the developed method are specified.

Using a local low rank plus sparse reconstruction to accelerate dynamic hyperpolarized 13C imaging using the bSSFP sequence.

PubMed

Milshteyn, Eugene; von Morze, Cornelius; Reed, Galen D; Shang, Hong; Shin, Peter J; Larson, Peder E Z; Vigneron, Daniel B

2018-05-01

Acceleration of dynamic 2D (T 2 Mapping) and 3D hyperpolarized 13 C MRI acquisitions using the balanced steady-state free precession sequence was achieved with a specialized reconstruction method, based on the combination of low rank plus sparse and local low rank reconstructions. Methods were validated using both retrospectively and prospectively undersampled in vivo data from normal rats and tumor-bearing mice. Four-fold acceleration of 1-2 mm isotropic 3D dynamic acquisitions with 2-5 s temporal resolution and two-fold acceleration of 0.25-1 mm 2 2D dynamic acquisitions was achieved. This enabled visualization of the biodistribution of [2- 13 C]pyruvate, [1- 13 C]lactate, [ 13 C,  15 N 2 ]urea, and HP001 within heart, kidneys, vasculature, and tumor, as well as calculation of high resolution T 2 maps. Copyright © 2018 Elsevier Inc. All rights reserved.

High-throughput microfluidics to control and measure signaling dynamics in single yeast cells

PubMed Central

Hansen, Anders S.; Hao, Nan; O'Shea, Erin K.

2015-01-01

Microfluidics coupled to quantitative time-lapse fluorescence microscopy is transforming our ability to control, measure, and understand signaling dynamics in single living cells. Here we describe a pipeline that incorporates multiplexed microfluidic cell culture, automated programmable fluid handling for cell perturbation, quantitative time-lapse microscopy, and computational analysis of time-lapse movies. We illustrate how this setup can be used to control the nuclear localization of the budding yeast transcription factor Msn2. Using this protocol, we generate oscillations of Msn2 localization and measure the dynamic gene expression response of individual genes in single cells. The protocol allows a single researcher to perform up to 20 different experiments in a single day, whilst collecting data for thousands of single cells. Compared to other protocols, the present protocol is relatively easy to adopt and higher-throughput. The protocol can be widely used to control and monitor single-cell signaling dynamics in other signal transduction systems in microorganisms. PMID:26158443

Dynamic delamination crack propagation in a graphite/epoxy laminate

NASA Technical Reports Server (NTRS)

Grady, J. E.; Sun, C. T.

1991-01-01

Dynamic delamination crack propagation in a (90/0) 5s Graphite/Epoxy laminate with an embedded interfacial crack was investigated experimentally using high speed photography. The dynamic motion was produced by impacting the beamlike laminate specimen with a silicon rubber ball. The threshold impact velocities required to initiate dynamic crack propagation in laminates with varying initial crack positions were determined. The crack propagation speeds were estimated from the photographs. Results show that the through the thickness position of the embedded crack can significantly affect the dominant mechanism and the threshold impact velocity for the onset of crack movement. If the initial delamination is placed near the top of bottom surface of the laminate, local buckling of the delaminated plies may cause instability of the crack. If the initial delamination lies on the midplane, local buckling does not occur and the initiation of crack propagation appears to be dominated by Mode II fracture. The crack propagation and arrest observed was seen to be affected by wave motion within the delamination region.

Local sharpening and subspace wavefront correction with predictive dynamic digital holography

NASA Astrophysics Data System (ADS)

Sulaiman, Sennan; Gibson, Steve

2017-09-01

Digital holography holds several advantages over conventional imaging and wavefront sensing, chief among these being significantly fewer and simpler optical components and the retrieval of complex field. Consequently, many imaging and sensing applications including microscopy and optical tweezing have turned to using digital holography. A significant obstacle for digital holography in real-time applications, such as wavefront sensing for high energy laser systems and high speed imaging for target racking, is the fact that digital holography is computationally intensive; it requires iterative virtual wavefront propagation and hill-climbing to optimize some sharpness criteria. It has been shown recently that minimum-variance wavefront prediction can be integrated with digital holography and image sharpening to reduce significantly large number of costly sharpening iterations required to achieve near-optimal wavefront correction. This paper demonstrates further gains in computational efficiency with localized sharpening in conjunction with predictive dynamic digital holography for real-time applications. The method optimizes sharpness of local regions in a detector plane by parallel independent wavefront correction on reduced-dimension subspaces of the complex field in a spectral plane.

Experimental Observation of Dynamical Localization in Laser-Kicked Molecular Rotors.

PubMed

Bitter, M; Milner, V

2016-09-30

The periodically kicked rotor is a paradigm system for studying quantum effects on classically chaotic dynamics. The wave function of the quantum rotor localizes in angular momentum space, similarly to Anderson localization of the electronic wave function in disordered solids. Here, we observe dynamical localization in a system of true quantum rotors by subjecting nitrogen molecules to periodic sequences of femtosecond pulses. Exponential distribution of the molecular angular momentum-the hallmark of dynamical localization-is measured directly by means of coherent Raman scattering. We demonstrate the suppressed rotational energy growth with the number of laser kicks and study the dependence of the localization length on the kick strength. Because of its quantum coherent nature, both timing and amplitude noise are shown to destroy the localization and revive the diffusive growth of energy.

Small Modifications to Network Topology Can Induce Stochastic Bistable Spiking Dynamics in a Balanced Cortical Model

PubMed Central

McDonnell, Mark D.; Ward, Lawrence M.

2014-01-01

Abstract Directed random graph models frequently are used successfully in modeling the population dynamics of networks of cortical neurons connected by chemical synapses. Experimental results consistently reveal that neuronal network topology is complex, however, in the sense that it differs statistically from a random network, and differs for classes of neurons that are physiologically different. This suggests that complex network models whose subnetworks have distinct topological structure may be a useful, and more biologically realistic, alternative to random networks. Here we demonstrate that the balanced excitation and inhibition frequently observed in small cortical regions can transiently disappear in otherwise standard neuronal-scale models of fluctuation-driven dynamics, solely because the random network topology was replaced by a complex clustered one, whilst not changing the in-degree of any neurons. In this network, a small subset of cells whose inhibition comes only from outside their local cluster are the cause of bistable population dynamics, where different clusters of these cells irregularly switch back and forth from a sparsely firing state to a highly active state. Transitions to the highly active state occur when a cluster of these cells spikes sufficiently often to cause strong unbalanced positive feedback to each other. Transitions back to the sparsely firing state rely on occasional large fluctuations in the amount of non-local inhibition received. Neurons in the model are homogeneous in their intrinsic dynamics and in-degrees, but differ in the abundance of various directed feedback motifs in which they participate. Our findings suggest that (i) models and simulations should take into account complex structure that varies for neuron and synapse classes; (ii) differences in the dynamics of neurons with similar intrinsic properties may be caused by their membership in distinctive local networks; (iii) it is important to identify neurons that share physiological properties and location, but differ in their connectivity. PMID:24743633

When small changes matter: the role of cross-scale interactions between habitat and ecological connectivity in recovery.

PubMed

Thrush, Simon F; Hewitt, Judi E; Lohrer, Andrew M; Chiaroni, Luca D

2013-01-01

Interaction between the diversity of local communities and the degree of connectivity between them has the potential to influence local recovery rates and thus profoundly affect community dynamics in the face of the cumulative impacts that occur across regions. Although such complex interactions have been modeled, field experiments in natural ecosystems to investigate the importance of interactions between local and regional processes are rare, especially so in coastal marine seafloor habitats subjected to many types of disturbance. We conducted a defaunation experiment at eight subtidal sites, incorporating manipulation of habitat structure, to test the relative importance of local habitat features and colonist supply in influencing macrobenthic community recovery rate. Our sites varied in community composition, habitat characteristics, and hydrodynamic conditions, and we conducted the experiment in two phases, exposing defaunated plots to colonists during periods of either high or low larval colonist supply. In both phases of the experiment, five months after disturbance, we were able to develop models that explained a large proportion of variation in community recovery rate between sites. Our results emphasize that the connectivity to the regional species pool influences recovery rate, and although local habitat effects were important, the strength of these effects was affected by broader-scale site characteristics and connectivity. Empirical evidence that cross-scale interactions are important in disturbance-recovery dynamics emphasizes the complex dynamics underlying seafloor community responses to cumulative disturbance.

Navier-Stokes Simulation of UH-60A Rotor/Wake Interaction Using Adaptive Mesh Refinement

NASA Technical Reports Server (NTRS)

Chaderjian, Neal M.

2017-01-01

High-resolution simulations of rotor/vortex-wake interaction for a UH60-A rotor under BVI and dynamic stallconditions were carried out with the OVERFLOW Navier-Stokes code.a. The normal force and pitching moment variation with azimuth angle were in good overall agreementwith flight-test data, similar to other CFD results reported in the literature.b. The wake-grid resolution did not have a significant effect on the rotor-blade airloads. This surprisingresult indicates that a wake grid spacing of (Delta)S=10% ctip is sufficient for engineering airloads predictionfor hover and forward flight. This assumes high-resolution body grids, high-order spatial accuracy, anda hybrid RANS/DDES turbulence model.c. Three-dimensional dynamic stall was found to occur due the presence of blade-tip vortices passing overa rotor blade on the retreating side. This changed the local airfoil angle of attack, causing stall, unlikethe 2D perspective of pure pitch oscillation of the local airfoil section.

Dynamic Stark spectroscopic measurements of microwave electric fields inside the plasma near a high-power antenna.

PubMed

Klepper, C C; Isler, R C; Hillairet, J; Martin, E H; Colas, L; Ekedahl, A; Goniche, M; Harris, J H; Hillis, D L; Panayotis, S; Pegourié, B; Lotte, Ph; Colledani, G; Martin, V

2013-05-24

Fully dynamic Stark effect visible spectroscopy was used for the first time to directly measure the local rf electric field in the boundary plasma near a high-power antenna in high-performance, magnetically confined, fusion energy experiment. The measurement was performed in the superconducting tokamak Tore Supra, in the near field of a 1–3 MW, lower-hybrid, 3.7 GHz wave-launch antenna, and combined with modeling of neutral atom transport to estimate the local rf electric field amplitude (as low as 1–2 kV/cm) and direction in this region. The measurement was then shown to be consistent with the predicted values from a 2D full-wave propagation model. Notably the measurement confirmed that the electric field direction deviates substantially from the direction in which it is launched by the waveguides as it penetrates only a few cm radially inward into the plasma from the waveguides, consistent with the model.

Population dynamics in non-homogeneous environments

NASA Astrophysics Data System (ADS)

Alards, Kim M. J.; Tesser, Francesca; Toschi, Federico

2014-11-01

For organisms living in aquatic ecosystems the presence of fluid transport can have a strong influence on the dynamics of populations and on evolution of species. In particular, displacements due to self-propulsion, summed up with turbulent dispersion at larger scales, strongly influence the local densities and thus population and genetic dynamics. Real marine environments are furthermore characterized by a high degree of non-homogeneities. In the case of population fronts propagating in ``fast'' turbulence, with respect to the population duplication time, the flow effect can be studied by replacing the microscopic diffusivity with an effective turbulent diffusivity. In the opposite case of ``slow'' turbulence the advection by the flow has to be considered locally. Here we employ numerical simulations to study the influence of non-homogeneities in the diffusion coefficient of reacting individuals of different species expanding in a 2 dimensional space. Moreover, to explore the influence of advection, we consider a population expanding in the presence of simple velocity fields like cellular flows. The output is analyzed in terms of front roughness, front shape, propagation speed and, concerning the genetics, by means of heterozygosity and local and global extinction probabilities.

A one-dimensional model to describe flow localization in viscoplastic slender bars subjected to super critical impact velocities

NASA Astrophysics Data System (ADS)

Vaz-Romero, A.; Rodríguez-Martínez, J. A.

2018-01-01

In this paper we investigate flow localization in viscoplastic slender bars subjected to dynamic tension. We explore loading rates above the critical impact velocity: the wave initiated in the impacted end by the applied velocity is the trigger for the localization of plastic deformation. The problem has been addressed using two kinds of numerical simulations: (1) one-dimensional finite difference calculations and (2) axisymmetric finite element computations. The latter calculations have been used to validate the capacity of the finite difference model to describe plastic flow localization at high impact velocities. The finite difference model, which highlights due to its simplicity, allows to obtain insights into the role played by the strain rate and temperature sensitivities of the material in the process of dynamic flow localization. Specifically, we have shown that viscosity can stabilize the material behavior to the point of preventing the appearance of the critical impact velocity. This is a key outcome of our investigation, which, to the best of the authors' knowledge, has not been previously reported in the literature.

Shear-banding and superdiffusivity in entangled polymer solutions

NASA Astrophysics Data System (ADS)

Shin, Seunghwan; Dorfman, Kevin D.; Cheng, Xiang

2017-12-01

Using high-resolution confocal rheometry, we study the shear profiles of well-entangled DNA solutions under large-amplitude oscillatory shear in a rectilinear planar shear cell. With increasing Weissenberg number (Wi), we observe successive transitions from normal Newtonian linear shear profiles to wall-slip dominant shear profiles and, finally, to shear-banding profiles at high Wi. To investigate the microscopic origin of the observed shear banding, we study the dynamics of micron-sized tracers embedded in DNA solutions. Surprisingly, tracer particles in the shear frame exhibit transient superdiffusivity and strong dynamic heterogeneity. The probability distribution functions of particle displacements follow a power-law scaling at large displacements, indicating a Lévy-walk-type motion, reminiscent of tracer dynamics in entangled wormlike micelle solutions and sheared colloidal glasses. We further characterize the length and time scales associated with the abnormal dynamics of tracer particles. We hypothesize that the unusual particle dynamics arise from localized shear-induced chain disentanglement.

Sublattice parallel replica dynamics.

PubMed

Martínez, Enrique; Uberuaga, Blas P; Voter, Arthur F

2014-06-01

Exascale computing presents a challenge for the scientific community as new algorithms must be developed to take full advantage of the new computing paradigm. Atomistic simulation methods that offer full fidelity to the underlying potential, i.e., molecular dynamics (MD) and parallel replica dynamics, fail to use the whole machine speedup, leaving a region in time and sample size space that is unattainable with current algorithms. In this paper, we present an extension of the parallel replica dynamics algorithm [A. F. Voter, Phys. Rev. B 57, R13985 (1998)] by combining it with the synchronous sublattice approach of Shim and Amar [ and , Phys. Rev. B 71, 125432 (2005)], thereby exploiting event locality to improve the algorithm scalability. This algorithm is based on a domain decomposition in which events happen independently in different regions in the sample. We develop an analytical expression for the speedup given by this sublattice parallel replica dynamics algorithm and compare it with parallel MD and traditional parallel replica dynamics. We demonstrate how this algorithm, which introduces a slight additional approximation of event locality, enables the study of physical systems unreachable with traditional methodologies and promises to better utilize the resources of current high performance and future exascale computers.

Dynamics of metastable breathers in nonlinear chains in acoustic vacuum

NASA Astrophysics Data System (ADS)

Sen, Surajit; Mohan, T. R. Krishna

2009-03-01

The study of the dynamics of one-dimensional chains with both harmonic and nonlinear interactions, as in the Fermi-Pasta-Ulam and related problems, has played a central role in efforts to identify the broad consequences of nonlinearity in these systems. Nevertheless, little is known about the dynamical behavior of purely nonlinear chains where there is a complete absence of the harmonic term, and hence sound propagation is not admissible, i.e., under conditions of “acoustic vacuum.” Here we study the dynamics of highly localized excitations, or breathers, which are known to be initiated by the quasistatic stretching of the bonds between adjacent particles. We show via detailed particle-dynamics-based studies that many low-energy pulses also form in the vicinity of the perturbation, and the breathers that form are “fragile” in the sense that they can be easily delocalized by scattering events in the system. We show that the localized excitations eventually disperse, allowing the system to attain an equilibrium-like state that is realizable in acoustic vacuum. We conclude with a discussion of how the dynamics is affected by the presence of acoustic oscillations.

Anyonic self-induced disorder in a stabilizer code: Quasi many-body localization in a translational invariant model

NASA Astrophysics Data System (ADS)

Yarloo, H.; Langari, A.; Vaezi, A.

2018-02-01

We enquire into the quasi many-body localization in topologically ordered states of matter, revolving around the case of Kitaev toric code on the ladder geometry, where different types of anyonic defects carry different masses induced by environmental errors. Our study verifies that the presence of anyons generates a complex energy landscape solely through braiding statistics, which suffices to suppress the diffusion of defects in such clean, multicomponent anyonic liquid. This nonergodic dynamics suggests a promising scenario for investigation of quasi many-body localization. Computing standard diagnostics evidences that a typical initial inhomogeneity of anyons gives birth to a glassy dynamics with an exponentially diverging time scale of the full relaxation. Our results unveil how self-generated disorder ameliorates the vulnerability of topological order away from equilibrium. This setting provides a new platform which paves the way toward impeding logical errors by self-localization of anyons in a generic, high energy state, originated exclusively in their exotic statistics.

Statistical significance approximation in local trend analysis of high-throughput time-series data using the theory of Markov chains.

PubMed

Xia, Li C; Ai, Dongmei; Cram, Jacob A; Liang, Xiaoyi; Fuhrman, Jed A; Sun, Fengzhu

2015-09-21

Local trend (i.e. shape) analysis of time series data reveals co-changing patterns in dynamics of biological systems. However, slow permutation procedures to evaluate the statistical significance of local trend scores have limited its applications to high-throughput time series data analysis, e.g., data from the next generation sequencing technology based studies. By extending the theories for the tail probability of the range of sum of Markovian random variables, we propose formulae for approximating the statistical significance of local trend scores. Using simulations and real data, we show that the approximate p-value is close to that obtained using a large number of permutations (starting at time points >20 with no delay and >30 with delay of at most three time steps) in that the non-zero decimals of the p-values obtained by the approximation and the permutations are mostly the same when the approximate p-value is less than 0.05. In addition, the approximate p-value is slightly larger than that based on permutations making hypothesis testing based on the approximate p-value conservative. The approximation enables efficient calculation of p-values for pairwise local trend analysis, making large scale all-versus-all comparisons possible. We also propose a hybrid approach by integrating the approximation and permutations to obtain accurate p-values for significantly associated pairs. We further demonstrate its use with the analysis of the Polymouth Marine Laboratory (PML) microbial community time series from high-throughput sequencing data and found interesting organism co-occurrence dynamic patterns. The software tool is integrated into the eLSA software package that now provides accelerated local trend and similarity analysis pipelines for time series data. The package is freely available from the eLSA website: http://bitbucket.org/charade/elsa.

Merging Black Hole Binaries in Galactic Nuclei: Implications for Advanced-LIGO Detections

NASA Astrophysics Data System (ADS)

Antonini, Fabio; Rasio, Frederic A.

2016-11-01

Motivated by the recent detection of gravitational waves from the black hole binary merger GW150914, we study the dynamical evolution of (stellar-mass) black holes in galactic nuclei, where massive star clusters reside. With masses of ˜ {10}7 {M}⊙ and sizes of only a few parsecs, nuclear star clusters (NSCs) are the densest stellar systems observed in the local universe and represent a robust environment where black hole binaries can dynamically form, harden, and merge. We show that due to their large escape speeds, NSCs can retain a large fraction of their merger remnants. Successive mergers can then lead to significant growth and produce black hole mergers of several tens of solar masses similar to GW150914 and up to a few hundreds of solar masses, without the need to invoke extremely low metallicity environments. We use a semi-analytical approach to describe the dynamics of black holes in massive star clusters. Our models give a black hole binary merger rate of ≈ 1.5 {{Gpc}}-3 {{yr}}-1 from NSCs, implying up to a few tens of possible detections per year with Advanced LIGO. Moreover, we find a local merger rate of ˜ 1 {{Gpc}}-3 {{yr}}-1 for high mass black hole binaries similar to GW150914; a merger rate comparable to or higher than that of similar binaries assembled dynamically in globular clusters (GCs). Finally, we show that if all black holes receive high natal kicks, ≳ 50 {km} {{{s}}}-1, then NSCs will dominate the local merger rate of binary black holes compared to either GCs or isolated binary evolution.

Visualization of local Ca2+ dynamics with genetically encoded bioluminescent reporters.

PubMed

Rogers, Kelly L; Stinnakre, Jacques; Agulhon, Cendra; Jublot, Delphine; Shorte, Spencer L; Kremer, Eric J; Brûlet, Philippe

2005-02-01

Measurements of local Ca2+ signalling at different developmental stages and/or in specific cell types is important for understanding aspects of brain functioning. The use of light excitation in fluorescence imaging can cause phototoxicity, photobleaching and auto-fluorescence. In contrast, bioluminescence does not require the input of radiative energy and can therefore be measured over long periods, with very high temporal resolution. Aequorin is a genetically encoded Ca(2+)-sensitive bioluminescent protein, however, its low quantum yield prevents dynamic measurements of Ca2+ responses in single cells. To overcome this limitation, we recently reported the bi-functional Ca2+ reporter gene, GFP-aequorin (GA), which was developed specifically to improve the light output and stability of aequorin chimeras [V. Baubet, et al., (2000) PNAS, 97, 7260-7265]. In the current study, we have genetically targeted GA to different microdomains important in synaptic transmission, including to the mitochondrial matrix, endoplasmic reticulum, synaptic vesicles and to the postsynaptic density. We demonstrate that these reporters enable 'real-time' measurements of subcellular Ca2+ changes in single mammalian neurons using bioluminescence. The high signal-to-noise ratio of these reporters is also important in that it affords the visualization of Ca2+ dynamics in cell-cell communication in neuronal cultures and tissue slices. Further, we demonstrate the utility of this approach in ex-vivo preparations of mammalian retina, a paradigm in which external light input should be controlled. This represents a novel molecular imaging approach for non-invasive monitoring of local Ca2+ dynamics and cellular communication in tissue or whole animal studies.

On High-Order Radiation Boundary Conditions

NASA Technical Reports Server (NTRS)

Hagstrom, Thomas

1995-01-01

In this paper we develop the theory of high-order radiation boundary conditions for wave propagation problems. In particular, we study the convergence of sequences of time-local approximate conditions to the exact boundary condition, and subsequently estimate the error in the solutions obtained using these approximations. We show that for finite times the Pade approximants proposed by Engquist and Majda lead to exponential convergence if the solution is smooth, but that good long-time error estimates cannot hold for spatially local conditions. Applications in fluid dynamics are also discussed.

Manifestations of Dynamical Localization in the Disordered XXZ Spin Chain

NASA Astrophysics Data System (ADS)

Elgart, Alexander; Klein, Abel; Stolz, Günter

2018-04-01

We study disordered XXZ spin chains in the Ising phase exhibiting droplet localization, a single cluster localization property we previously proved for random XXZ spin chains. It holds in an energy interval I near the bottom of the spectrum, known as the droplet spectrum. We establish dynamical manifestations of localization in the energy window I, including non-spreading of information, zero-velocity Lieb-Robinson bounds, and general dynamical clustering. Our results do not rely on knowledge of the dynamical characteristics of the model outside the droplet spectrum. A byproduct of our analysis is that for random XXZ spin chains this droplet localization can happen only inside the droplet spectrum.

Interaction quench dynamics in the Kondo model in the presence of a local magnetic field.

PubMed

Heyl, M; Kehrein, S

2010-09-01

In this work we investigate the quench dynamics in the Kondo model on the Toulouse line in the presence of a local magnetic field. It is shown that this setup can be realized by either applying the local magnetic field directly or by preparing the system in a macroscopically spin-polarized initial state. In the latter case, the magnetic field results from a subtlety in applying the bosonization technique where terms that are usually referred to as finite-size corrections become important in the present non-equilibrium setting. The transient dynamics are studied by analyzing exact analytical results for the local spin dynamics. The timescale for the relaxation of the local dynamical quantities turns out to be exclusively determined by the Kondo scale. In the transient regime, one observes damped oscillations in the local correlation functions with a frequency set by the magnetic field.

Modeling and simulation framework for dynamic strain localization in elasto-viscoplastic metallic materials subject to large deformations

DOE PAGES

Mourad, Hashem Mourad; Bronkhorst, Curt Allan; Livescu, Veronica; ...

2016-09-23

This study describes a theoretical and computational framework for the treatment of adiabatic shear band formation in rate-sensitive polycrystalline metallic materials. From a computational perspective, accurate representation of strain localization behavior has been a long-standing challenge. In addition, the underlying physical mechanisms leading to the localization of plastic deformation are still not fully understood. The proposed framework is built around an enhanced-strain finite element formulation, designed to alleviate numerical pathologies known to arise in localization problems, by allowing a localization band of given finite width (weak discontinuity) to be embedded within individual elements. The mechanical threshold strength (MTS) model ismore » used to represent the temperature and strain rate-dependent viscoplastic response of the material. This classical flow stress model employs an internal state variable to quantify the effect of dislocation structure evolution (work hardening and recovery). In light of growing evidence suggesting that the softening effect of dynamic recrystallization may play a significant role, alongside thermal softening, in the process of shear band formation and growth, a simple dynamic recrystallization model is proposed and cast within the context of the MTS model with the aid of the aforementioned internal state variable. An initiation criterion for shear localization in rate and temperature-sensitive materials is introduced and used in the present context of high-rate loading, where material rate-dependence is pronounced and substantial temperature increases are achieved due to the dissipative nature of viscoplastic processes. In addition, explicit time integration is adopted to facilitate treatment of the dynamic problems under consideration, where strain rates in excess of 10 4 s –1 are typically attained. Two series of experiments are conducted on AISI 316L stainless steel, employing the commonly used top-hat sample geometry and the Split-Hopkinson Pressure Bar dynamic test system. Axi-symmetric finite element simulation results are compared to cross-sectional micrographs of recovered samples and experimental load–displacement results, in order to examine the performance of the proposed framework and demonstrate its effectiveness in treating the initiation and growth of adiabatic shear banding in dynamically loaded metallic materials. These comparisons demonstrate that thermal softening alone is insufficient to induce shear localization behaviors observed in some materials, such as stainless steel, and support the hypothesis that dynamic recrystallization and/or other softening mechanisms play an essential role in this process.« less

An insight into the formation of severe ozone episodes: modeling the 21/03/01 event in the ESCOMPTE region

NASA Astrophysics Data System (ADS)

Lasry, Fanny; Coll, Isabelle; Buisson, Emmanuel

2005-03-01

High ozone concentrations are observed more and more frequently in the lower troposphere. The development of such polluted episodes is linked to a complex set of chemical, physical and dynamical parameters that interact with each other. To improve air quality, it is necessary to understand and quantify the role of all these processes on the intensity of ozone formation. The ESCOMPTE program, especially dedicated to the numerical simulation of photochemical episodes, offers an ideal frame to investigate details of the roles of many of these processes through 3D modeling. This paper presents the analysis, with a 3D eulerian model, of a severe and local episode of ozone pollution that occurred on the 21st of March 2001 in the ESCOMPTE region. This episode is particularly interesting due to the intensity of the observed ozone peaks (450 μg/m 3 during 15 mn) but also because it did not occur in summer but at the beginning of spring. As part of the premodeling work of the ESCOMPTE program, this study focuses on the sensitivity of the simulated ozone peaks to various chemical and physical phenomena (long-range transport, industrial emissions, local dynamic phenomena…) to determine their influence on the rise of high local photooxidant concentrations and to better picture the photochemistry of the ESCOMPTE region. Through sensitivity tests to dynamical calculation resolution and emissions, this paper shows how the combination of sea and pond breezes with emissions of reactive VOCs can generate local intense ozone peaks.

SPM investigation of local aging effects in glassy polymers

NASA Astrophysics Data System (ADS)

Crider, Philip

2005-03-01

We investigate the cooperative and heterogeneous nature of glassy dynamics by nanometer-scale probing in a glassy polymer, Polyvinyl-Actetate (PVAc), with a Scanning Force Microscope (SFM). Using ultra-high-vacuum (UHV) Scanning Capacitive Force Microscopy techniques, nanometer-scale capacitive responses are probed. Dielectric relaxation near the glass transition is investigated, and scanning capabilities are utilized to analyze spatial response on a nanometer scale. The results of these studies may yield insight into the understanding of temperature-dependent cooperative length scales, local aging properties, and energy landscape properties of evolving dipole clusters on a mesoscopic scale. Results are used to test the validity and relevance of current models of glassy dynamics.

Wavepacket dynamics in one-dimensional system with long-range correlated disorder

NASA Astrophysics Data System (ADS)

Yamada, Hiroaki S.

2018-03-01

We numerically investigate dynamical property in the one-dimensional tight-binding model with long-range correlated disorder having power spectrum 1 /fα (α: spectrum exponent) generated by Fourier filtering method. For relatively small α <αc (=2) time-dependence of mean square displacement (MSD) of the initially localized wavepacket shows ballistic spread and localizes as time elapses. It is shown that α-dependence of the dynamical localization length determined by the MSD exhibits a simple scaling law in the localization regime for the relatively weak disorder strength W. Furthermore, scaled MSD by the dynamical localization length almost obeys an universal function from the ballistic to the localization regime in the various combinations of the parameters α and W.

High-order hydrodynamic algorithms for exascale computing

DOE Office of Scientific and Technical Information (OSTI.GOV)

Morgan, Nathaniel Ray

Hydrodynamic algorithms are at the core of many laboratory missions ranging from simulating ICF implosions to climate modeling. The hydrodynamic algorithms commonly employed at the laboratory and in industry (1) typically lack requisite accuracy for complex multi- material vortical flows and (2) are not well suited for exascale computing due to poor data locality and poor FLOP/memory ratios. Exascale computing requires advances in both computer science and numerical algorithms. We propose to research the second requirement and create a new high-order hydrodynamic algorithm that has superior accuracy, excellent data locality, and excellent FLOP/memory ratios. This proposal will impact a broadmore » range of research areas including numerical theory, discrete mathematics, vorticity evolution, gas dynamics, interface instability evolution, turbulent flows, fluid dynamics and shock driven flows. If successful, the proposed research has the potential to radically transform simulation capabilities and help position the laboratory for computing at the exascale.« less

Toward canonical ensemble distribution from self-guided Langevin dynamics simulation

NASA Astrophysics Data System (ADS)

Wu, Xiongwu; Brooks, Bernard R.

2011-04-01

This work derives a quantitative description of the conformational distribution in self-guided Langevin dynamics (SGLD) simulations. SGLD simulations employ guiding forces calculated from local average momentums to enhance low-frequency motion. This enhancement in low-frequency motion dramatically accelerates conformational search efficiency, but also induces certain perturbations in conformational distribution. Through the local averaging, we separate properties of molecular systems into low-frequency and high-frequency portions. The guiding force effect on the conformational distribution is quantitatively described using these low-frequency and high-frequency properties. This quantitative relation provides a way to convert between a canonical ensemble and a self-guided ensemble. Using example systems, we demonstrated how to utilize the relation to obtain canonical ensemble properties and conformational distributions from SGLD simulations. This development makes SGLD not only an efficient approach for conformational searching, but also an accurate means for conformational sampling.

Evaluation of high field and/or local heating based material degradation of nanoscale metal emitter tips: a molecular dynamics analysis

NASA Astrophysics Data System (ADS)

Zhang, Z.; Giesselmann, M.; Mankowski, J.; Dickens, J.; Neuber, A.; Joshi, R. P.

2017-05-01

A molecular dynamics (MD) model is used to study the potential for mass ejection from a metal nanoprotrusion, driven by high fields and temperature increases. Three-dimensional calculations of the electric fields surrounding the metal emitter are used to obtain the Maxwell stress on the metal. This surface loading is coupled into MD simulations. Our results show that mass ejection from the nanotip is possible and indicate that both larger aspect ratios and higher local temperatures will drive the instability. Hence it is predicted that in a nonuniform distribution of emitters, the longer and thinner sites will suffer the most damage, which is generally in keeping with the trends of a recent experimental report (Parson et al 2014 IEEE Trans. Plasma Sci. 42 3982). A possible hypothesis for mass ejection in the absence of a distinct nanoprotrusion is also discussed.

Development of the Fully Adaptive Storm Tide (FAST) Model for hurricane induced storm surges and associated inundation

NASA Astrophysics Data System (ADS)

Teng, Y. C.; Kelly, D.; Li, Y.; Zhang, K.

2016-02-01

A new state-of-the-art model (the Fully Adaptive Storm Tide model, FAST) for the prediction of storm surges over complex landscapes is presented. The FAST model is based on the conservation form of the full non-linear depth-averaged long wave equations. The equations are solved via an explicit finite volume scheme with interfacial fluxes being computed via Osher's approximate Riemann solver. Geometric source terms are treated in a high order manner that is well-balanced. The numerical solution technique has been chosen to enable the accurate simulation of wetting and drying over complex topography. Another important feature of the FAST model is the use of a simple underlying Cartesian mesh with tree-based static and dynamic adaptive mesh refinement (AMR). This permits the simulation of unsteady flows over varying landscapes (including localized features such as canals) by locally increasing (or relaxing) grid resolution in a dynamic fashion. The use of (dynamic) AMR lowers the computational cost of the storm surge model whilst retaining high resolution (and thus accuracy) where and when it is required. In additional, the FAST model has been designed to execute in a parallel computational environment with localized time-stepping. The FAST model has already been carefully verified against a series of benchmark type problems (Kelly et al. 2015). Here we present two simulations of the storm tide due to Hurricane Ike(2008) and Hurricane Sandy (2012). The model incorporates high resolution LIDAR data for the major portion of the New York City. Results compare favorably with water elevations measured by NOAA tidal gauges, by mobile sensors deployed and high water marks collected by the USGS.

Local support against gravity in magnetoturbulent fluids

NASA Astrophysics Data System (ADS)

Schmidt, W.; Collins, D. C.; Kritsuk, A. G.

2013-06-01

Comparisons of the integrated thermal pressure support of gas against its gravitational potential energy lead to critical mass scales for gravitational instability such as the Jeans and the Bonnor-Ebert masses, which play an important role in the analysis of many physical systems, including the heuristics of numerical simulations. In a strict theoretical sense, however, neither the Jeans nor the Bonnor-Ebert mass is meaningful when applied locally to substructure in a self-gravitating turbulent medium. For this reason, we investigate the local support by thermal pressure, turbulence and magnetic fields against gravitational compression through an approach that is independent of these concepts. At the centre of our approach is the dynamical equation for the divergence of the velocity field. We carry out a statistical analysis of the source terms of the local compression rate (the negative time derivative of the divergence) for simulations of forced self-gravitating turbulence in periodic boxes with zero, weak and moderately strong mean magnetic fields (measured by the averages of the magnetic and thermal pressures). We also consider the amplification of the magnetic field energy by shear and by compression. Thereby, we are able to demonstrate that the support against gravity is dominated by thermal pressure fluctuations, although magnetic pressure also yields a significant contribution. The net effect of turbulence in the highly supersonic regime, however, is to enhance compression rather than supporting overdense gas even if the vorticity is very high. This is incommensurate with the support of the highly dynamical substructures in magnetoturbulent fluids being determined by local virial equilibria of volume energies without surface stresses.

Metascalable molecular dynamics simulation of nano-mechano-chemistry

NASA Astrophysics Data System (ADS)

Shimojo, F.; Kalia, R. K.; Nakano, A.; Nomura, K.; Vashishta, P.

2008-07-01

We have developed a metascalable (or 'design once, scale on new architectures') parallel application-development framework for first-principles based simulations of nano-mechano-chemical processes on emerging petaflops architectures based on spatiotemporal data locality principles. The framework consists of (1) an embedded divide-and-conquer (EDC) algorithmic framework based on spatial locality to design linear-scaling algorithms, (2) a space-time-ensemble parallel (STEP) approach based on temporal locality to predict long-time dynamics, and (3) a tunable hierarchical cellular decomposition (HCD) parallelization framework to map these scalable algorithms onto hardware. The EDC-STEP-HCD framework exposes and expresses maximal concurrency and data locality, thereby achieving parallel efficiency as high as 0.99 for 1.59-billion-atom reactive force field molecular dynamics (MD) and 17.7-million-atom (1.56 trillion electronic degrees of freedom) quantum mechanical (QM) MD in the framework of the density functional theory (DFT) on adaptive multigrids, in addition to 201-billion-atom nonreactive MD, on 196 608 IBM BlueGene/L processors. We have also used the framework for automated execution of adaptive hybrid DFT/MD simulation on a grid of six supercomputers in the US and Japan, in which the number of processors changed dynamically on demand and tasks were migrated according to unexpected faults. The paper presents the application of the framework to the study of nanoenergetic materials: (1) combustion of an Al/Fe2O3 thermite and (2) shock initiation and reactive nanojets at a void in an energetic crystal.

A string of Peregrine rogue waves in the nonlocal nonlinear Schrödinger equation with parity-time symmetric self-induced potential

NASA Astrophysics Data System (ADS)

Gupta, Samit Kumar

2018-03-01

Dynamic wave localization phenomena draw fundamental and technological interests in optics and photonics. Based on the recently proposed (Ablowitz and Musslimani, 2013) continuous nonlocal nonlinear Schrödinger system with parity-time symmetric Kerr nonlinearity (PTNLSE), a numerical investigation has been carried out for two first order Peregrine solitons as the initial ansatz. Peregrine soliton, as an exact solution to the PTNLSE, evokes a very potent question: what effects does the interaction of two first order Peregrine solitons have on the overall optical field dynamics. Upon numerical computation, we observe the appearance of Kuznetsov-Ma (KM) soliton trains in the unbroken PT-phase when the initial Peregrine solitons are in phase. In the out of phase condition, it shows repulsive nonlinear waves. Quite interestingly, our study shows that within a specific range of the interval factor in the transverse co-ordinate there exists a string of high intensity well-localized Peregrine rogue waves in the PT unbroken phase. We note that the interval factor as well as the transverse shift parameter play important roles in the nonlinear interaction and evolution dynamics of the optical fields. This could be important in developing fundamental understanding of nonlocal non-Hermitian NLSE systems and dynamic wave localization behaviors.

Decipher the dynamic coordination between enzymatic activity and structural modulation at focal adhesions in living cells

NASA Astrophysics Data System (ADS)

Lu, Shaoying; Seong, Jihye; Wang, Yi; Chang, Shiou-Chi; Eichorst, John Paul; Ouyang, Mingxing; Li, Julie Y.-S.; Chien, Shu; Wang, Yingxiao

2014-07-01

Focal adhesions (FAs) are dynamic subcellular structures crucial for cell adhesion, migration and differentiation. It remains an enigma how enzymatic activities in these local complexes regulate their structural remodeling in live cells. Utilizing biosensors based on fluorescence resonance energy transfer (FRET), we developed a correlative FRET imaging microscopy (CFIM) approach to quantitatively analyze the subcellular coordination between the enzymatic Src activation and the structural FA disassembly. CFIM reveals that the Src kinase activity only within the microdomain of lipid rafts at the plasma membrane is coupled with FA dynamics. FA disassembly at cell periphery was linearly dependent on this raft-localized Src activity, although cells displayed heterogeneous levels of response to stimulation. Within lipid rafts, the time delay between Src activation and FA disassembly was 1.2 min in cells seeded on low fibronectin concentration ([FN]) and 4.3 min in cells on high [FN]. CFIM further showed that the level of Src-FA coupling, as well as the time delay, was regulated by cell-matrix interactions, as a tight enzyme-structure coupling occurred in FA populations mediated by integrin αvβ3, but not in those by integrin α5β1. Therefore, different FA subpopulations have distinctive regulation mechanisms between their local kinase activity and structural FA dynamics.

Rapid Neocortical Dynamics: Cellular and Network Mechanisms

PubMed Central

Haider, Bilal; McCormick, David A.

2011-01-01

The highly interconnected local and large-scale networks of the neocortical sheet rapidly and dynamically modulate their functional connectivity according to behavioral demands. This basic operating principle of the neocortex is mediated by the continuously changing flow of excitatory and inhibitory synaptic barrages that not only control participation of neurons in networks but also define the networks themselves. The rapid control of neuronal responsiveness via synaptic bombardment is a fundamental property of cortical dynamics that may provide the basis of diverse behaviors, including sensory perception, motor integration, working memory, and attention. PMID:19409263

AceCloud: Molecular Dynamics Simulations in the Cloud.

PubMed

Harvey, M J; De Fabritiis, G

2015-05-26

We present AceCloud, an on-demand service for molecular dynamics simulations. AceCloud is designed to facilitate the secure execution of large ensembles of simulations on an external cloud computing service (currently Amazon Web Services). The AceCloud client, integrated into the ACEMD molecular dynamics package, provides an easy-to-use interface that abstracts all aspects of interaction with the cloud services. This gives the user the experience that all simulations are running on their local machine, minimizing the learning curve typically associated with the transition to using high performance computing services.

A 1- to 10-GHz downconverter for high-resolution microwave survey

NASA Technical Reports Server (NTRS)

Mcwatters, D.

1994-01-01

A downconverter was designed, built, and tested for the High Resolution Microwave Survey project. The input frequency range is 1 to 10 GHz with instantaneous bandwidth of 350 MHz and dynamic range of 125 dB/Hz. Requirements were derived for the local oscillators and special design techniques were implemented to achieve the high degree of spectral purity required.

Metapopulation dynamics and the evolution of dispersal

NASA Astrophysics Data System (ADS)

Parvinen, Kalle

A metapopulation consists of local populations living in habitat patches. In this chapter metapopulation dynamics and the evolution of dispersal is studied in two metapopulation models defined in discrete time. In the first model there are finitely many patches, and in the other one there are infinitely many patches, which allows to incorporate catastrophes into the model. In the first model, cyclic local population dynamics can be either synchronized or not, and increasing dispersal both synchronizes and stabilizes metapopulation dynamics. On the other hand, the type of dynamics has a strong effect on the evolution of dispersal. In case of non-synchronized metapopulation dynamics, dispersal is much more beneficial than in the case of synchronized metapopulation dynamics. Local dynamics has a substantial effect also on the possibility of evolutionary branching in both models. Furthermore, with an Allee effect in the local dynamics of the second model, even evolutionary suicide can occur. It is an evolutionary process in which a viable population adapts in such a way that it can no longer persist.

Polymer dynamics under cylindrical confinement featuring a locally repulsive surface: A quasielastic neutron scattering study.

PubMed

Krutyeva, M; Pasini, S; Monkenbusch, M; Allgaier, J; Maiz, J; Mijangos, C; Hartmann-Azanza, B; Steinhart, M; Jalarvo, N; Richter, D

2017-05-28

We investigated the effect of intermediate cylindrical confinement with locally repulsive walls on the segmental and entanglement dynamics of a polymer melt by quasielastic neutron scattering. As a reference, the corresponding polymer melt was measured under identical conditions. The locally repulsive confinement was realized by hydrophilic anodic alumina nanopores with a diameter of 20 nm. The end-to-end distance of the hydrophobic infiltrated polyethylene-alt-propylene was close to this diameter. In the case of hard wall repulsion with negligible local attraction, several simulations predicted an acceleration of segmental dynamics close to the wall. Other than in attractive or neutral systems, where the segmental dynamics is slowed down, we found that the segmental dynamics in the nanopores is identical to the local mobility in the bulk. Even under very careful scrutiny, we could not find any acceleration of the surface-near segmental motion. On the larger time scale, the neutron spin-echo experiment showed that the Rouse relaxation was not altered by confinement effects. Also the entanglement dynamics was not affected. Thus at moderate confinement conditions, facilitated by locally repulsive walls, the dynamics remains as in the bulk melt, a result that is not so clear from simulations.

Polymer dynamics under cylindrical confinement featuring a locally repulsive surface: A quasielastic neutron scattering study

NASA Astrophysics Data System (ADS)

Krutyeva, M.; Pasini, S.; Monkenbusch, M.; Allgaier, J.; Maiz, J.; Mijangos, C.; Hartmann-Azanza, B.; Steinhart, M.; Jalarvo, N.; Richter, D.

2017-05-01

We investigated the effect of intermediate cylindrical confinement with locally repulsive walls on the segmental and entanglement dynamics of a polymer melt by quasielastic neutron scattering. As a reference, the corresponding polymer melt was measured under identical conditions. The locally repulsive confinement was realized by hydrophilic anodic alumina nanopores with a diameter of 20 nm. The end-to-end distance of the hydrophobic infiltrated polyethylene-alt-propylene was close to this diameter. In the case of hard wall repulsion with negligible local attraction, several simulations predicted an acceleration of segmental dynamics close to the wall. Other than in attractive or neutral systems, where the segmental dynamics is slowed down, we found that the segmental dynamics in the nanopores is identical to the local mobility in the bulk. Even under very careful scrutiny, we could not find any acceleration of the surface-near segmental motion. On the larger time scale, the neutron spin-echo experiment showed that the Rouse relaxation was not altered by confinement effects. Also the entanglement dynamics was not affected. Thus at moderate confinement conditions, facilitated by locally repulsive walls, the dynamics remains as in the bulk melt, a result that is not so clear from simulations.

Channel disturbances and morpho-dynamics: linking hydraulics, topographic changes and human impacts in a highly dynamic wandering river at multiple temporal scales

NASA Astrophysics Data System (ADS)

Vericat, Damià; Llena, Manel; Muñoz, Efrén; Ramos, Ester; Béjar, María; Brasington, James; Gibbins, Chris; Batalla, Ramon J.; Tena, Álvaro; Martínez-Casasnovas, José A.; Wheaton, Joe

2015-04-01

Episodic erosion, transport and deposition of sediments produce changes in river's channel morphology. These changes, although are directly related to flow hydraulics and bed material availability, supply and transport, could also be highly influenced by structural and local human impacts. Dams cut the continuity of sediment transfer and alter flood magnitude and frequency. In-channel gravel mining, however, disturbs channel beds locally, with a direct influence in upstream and downstream reaches. In this paper we present some of the preliminary results obtained in the background of MorphSed (www.morphsed.es). Morphsed is analysing the morpho-sedimentary dynamics of a mountain fluvial system located in the foothills of the Pyrenees, Iberian Peninsula. The study system is suffering major local alterations due to gravel mining. Changes on bed topography along a 12-km river reach have been analysed at two temporal scales: (i) decadal or historical and (ii) flood-based or contemporary. The study reach has suffered natural and human channel disturbances (i.e. major flood events, and gravel extractions and channel embankments, respectively). Preliminary results show how gravel mining occurred after the large flood event registered in October 1982 created a sedimentary disequilibrium in the reach. Additionally, the channel was heavily constrained associated to channel narrowing by embankments. The river has reached a new dynamic equilibrium by means of bed coarsening and channel incision, and changing from a braided to a wandering pattern. Contemporary competent flood events, however, cause severe damages in some of the embankments (i.e. lateral erosion). Gravel extractions in these sites are performed to protect these infrastructures and, in turn, are influencing local channel morpho-dynamics, increasing the sedimentary disequilibrium, exacerbating local channel incision processes, and modifying channel roughness and sediment transport dynamics. 2d hydraulic models show as these contemporary extractions influence on the magnitude and variability of hydraulic forces and, in turn, modify the conveyance of water and sediments through the study reach. All these changes have a direct influence on the ecological status of the river at different temporal and spatial scales. These links will be a key goal for progress towards the understanding of the interactions between river bed disturbance and ecological responses at multiple scales, and provide the basis for an integrated methodology that can be used to aid prediction, management and restoration of human stressed fluvial systems.

A Stochastic Water Balance Framework for Lowland Watersheds

NASA Astrophysics Data System (ADS)

Thompson, Sally; MacVean, Lissa; Sivapalan, Murugesu

2017-11-01

The water balance dynamics in lowland watersheds are influenced not only by local hydroclimatic controls on energy and water availability, but also by imports of water from the upstream watershed. These imports result in a stochastic extent of inundation in lowland watersheds that is determined by the local flood regime, watershed topography, and the rate of loss processes such as drainage and evaporation. Thus, lowland watershed water balances depend on two stochastic processes—rainfall and local inundation dynamics. Lowlands are high productivity environments that are disproportionately associated with urbanization, high productivity agriculture, biodiversity, and flood risk. Consequently, they are being rapidly altered by human development—generally with clear economic and social motivation—but also with significant trade-offs in ecosystem services provision, directly related to changes in the components and variability of the lowland water balance. We present a stochastic framework to assess the lowland water balance and its sensitivity to two common human interventions—replacement of native vegetation with alternative land uses, and construction of local flood protection levees. By providing analytical solutions for the mean and PDF of the water balance components, the proposed framework provides a mechanism to connect human interventions to hydrologic outcomes, and, in conjunction with ecosystem service production estimates, to evaluate trade-offs associated with lowland watershed development.

Collective Behaviors in Spatially Extended Systems with Local Interactions and Synchronous Updating

NASA Astrophysics Data System (ADS)

ChatÉ, H.; Manneville, P.

1992-01-01

Assessing the extent to which dynamical systems with many degrees of freedom can be described within a thermodynamics formalism is a problem that currently attracts much attention. In this context, synchronously updated regular lattices of identical, chaotic elements with local interactions are promising models for which statistical mechanics may be hoped to provide some insights. This article presents a large class of cellular automata rules and coupled map lattices of the above type in space dimensions d = 2 to 6.Such simple models can be approached by a mean-field approximation which usually reduces the dynamics to that of a map governing the evolution of some extensive density. While this approximation is exact in the d = infty limit, where macroscopic variables must display the time-dependent behavior of the mean-field map, basic intuition from equilibrium statistical mechanics rules out any such behavior in a low-dimensional systems, since it would involve the collective motion of locally disordered elements.The models studied are chosen to be as close as possible to mean-field conditions, i.e., rather high space dimension, large connectivity, and equal-weight coupling between sites. While the mean-field evolution is never observed, a new type of non-trivial collective behavior is found, at odds with the predictions of equilibrium statistical mechanics. Both in the cellular automata models and in the coupled map lattices, macroscopic variables frequently display a non-transient, time-dependent, low-dimensional dynamics emerging out of local disorder. Striking examples are period 3 cycles in two-state cellular automata and a Hopf bifurcation for a d = 5 lattice of coupled logistic maps. An extensive account of the phenomenology is given, including a catalog of behaviors, classification tables for the celular automata rules, and bifurcation diagrams for the coupled map lattices.The observed underlying dynamics is accompanied by an intrinsic quasi-Gaussian noise (stemming from the local disorder) which disappears in the infinite-size limit. The collective behaviors constitute a robust phenomenon, resisting external noise, small changes in the local dynamics, and modifications of the initial and boundary conditions. Synchronous updating, high space dimension and the regularity of connections are shown to be crucial ingredients in the subtle build-up of correlations giving rise to the collective motion. The discussion stresses the need for a theoretical understanding that neither equilibrium statistical mechanics nor higher-order mean-field approximations are able to provide.

Analysis of Dynamic Avalanche Phenomenon in SOI Lateral High-speed Diode during Reverse Recovery and Development of a Novel Device Structure for Suppressing Dynamic Avalanche

NASA Astrophysics Data System (ADS)

Tokura, Norihito; Yamamoto, Takao; Kato, Hisato; Nakagawa, Akio

We have studied the dynamic avalanche phenomenon in an SOI lateral diode during reverse recovery by using a mixed-mode device simulation. In the study, it has been found that local impact ionization occurs near an anode-side field oxide edge, where a high-density hole current flows and a high electric field appears simultaneously. We propose that a p-type anode extension region (AER) along a trench side wall effectively sweeps out stored carriers beneath an anode p-diffusion layer during reverse recovery, resulting in reduction of the electric field and remarkable suppression of the dynamic avalanche. The AER reduces the total recovery charge and does not cause any increase in the total stored charge under a forward bias operation. This effect is verified experimentally by the fabricated device with AER. Thus, the developed SOI lateral diode is promising as a high-speed and highly rugged free-wheeling diode, which can be integrated into next-generation SOI microinverters.

Forced canonical thermalization in a hadronic transport approach at high density

NASA Astrophysics Data System (ADS)

Oliinychenko, Dmytro; Petersen, Hannah

2017-03-01

Hadronic transport approaches based on an effective solution of the relativistic Boltzmann equation are widely applied for the dynamical description of heavy ion reactions at low beam energies. At high densities, the assumption of binary interactions often used in hadronic transport approaches may not be applicable anymore. Therefore, we effectively simulate the high-density regime using the local forced canonical thermalization. This framework provides the opportunity to interpolate in a dynamical way between two different limits of kinetic theory: the dilute gas approximation and the ideal fluid case. This approach will be important for studies of the dynamical evolution of heavy ion collisions at low and intermediate energies as experimentally investigated at the beam energy scan program at RHIC, and in the future at FAIR and NICA. On the other hand, this new way of modeling hot and dense strongly interacting matter might be relevant for small systems at high energies (LHC and RHIC) as well.

Isostatic and dynamic support of high topography on a North Atlantic passive margin

NASA Astrophysics Data System (ADS)

Pedersen, Vivi K.; Huismans, Ritske S.; Moucha, Robert

2016-07-01

Substantial controversy surrounds the origin of high topography along passive continental margins. Here we focus on the well-documented elevated passive margin in southwestern Scandinavia, and quantify the relative contributions of crustal isostasy and dynamic topography in controlling the present topography. We find that majority of the topography is compensated by the crustal structure, suggesting a topographic age that is in accord with the 400 Myr old Caledonian orogenesis. In addition, we propose that dynamic uplift of ∼300 m has rejuvenated existing topography locally in the coastal region over the last 10 Myr. Such uplift, combined with a general sea level fall, can help explain a variety of observations that have traditionally been interpreted in favor of a peneplain uplift model. We conclude that high topography along the Scandinavian margin cannot represent remnants of a peneplain uplifted within the last 20 Myr. The topography must have been high since the Caledonian orogeny.

Real-time Mesoscale Visualization of Dynamic Damage and Reaction in Energetic Materials under Impact

NASA Astrophysics Data System (ADS)

Chen, Wayne; Harr, Michael; Kerschen, Nicholas; Maris, Jesus; Guo, Zherui; Parab, Niranjan; Sun, Tao; Fezzaa, Kamel; Son, Steven

Energetic materials may be subjected to impact and vibration loading. Under these dynamic loadings, local stress or strain concentrations may lead to the formation of hot spots and unintended reaction. To visualize the dynamic damage and reaction processes in polymer bonded energetic crystals under dynamic compressive loading, a high speed X-ray phase contrast imaging setup was synchronized with a Kolsky bar and a light gas gun. Controlled compressive loading was applied on PBX specimens with a single or multiple energetic crystal particles and impact-induced damage and reaction processes were captured using the high speed X-ray imaging setup. Impact velocities were systematically varied to explore the critical conditions for reaction. At lower loading rates, ultrasonic exercitations were also applied to progressively damage the crystals, eventually leading to reaction. AFOSR, ONR.

Coevolution of dynamical states and interactions in dynamic networks

NASA Astrophysics Data System (ADS)

Zimmermann, Martín G.; Eguíluz, Víctor M.; San Miguel, Maxi

2004-06-01

We explore the coupled dynamics of the internal states of a set of interacting elements and the network of interactions among them. Interactions are modeled by a spatial game and the network of interaction links evolves adapting to the outcome of the game. As an example, we consider a model of cooperation in which the adaptation is shown to facilitate the formation of a hierarchical interaction network that sustains a highly cooperative stationary state. The resulting network has the characteristics of a small world network when a mechanism of local neighbor selection is introduced in the adaptive network dynamics. The highly connected nodes in the hierarchical structure of the network play a leading role in the stability of the network. Perturbations acting on the state of these special nodes trigger global avalanches leading to complete network reorganization.

Local thermal energy as a structural indicator in glasses.

PubMed

Zylberg, Jacques; Lerner, Edan; Bar-Sinai, Yohai; Bouchbinder, Eran

2017-07-11

Identifying heterogeneous structures in glasses-such as localized soft spots-and understanding structure-dynamics relations in these systems remain major scientific challenges. Here, we derive an exact expression for the local thermal energy of interacting particles (the mean local potential energy change caused by thermal fluctuations) in glassy systems by a systematic low-temperature expansion. We show that the local thermal energy can attain anomalously large values, inversely related to the degree of softness of localized structures in a glass, determined by a coupling between internal stresses-an intrinsic signature of glassy frustration-anharmonicity and low-frequency vibrational modes. These anomalously large values follow a fat-tailed distribution, with a universal exponent related to the recently observed universal [Formula: see text] density of states of quasilocalized low-frequency vibrational modes. When the spatial thermal energy field-a "softness field"-is considered, this power law tail manifests itself by highly localized spots, which are significantly softer than their surroundings. These soft spots are shown to be susceptible to plastic rearrangements under external driving forces, having predictive powers that surpass those of the normal modes-based approach. These results offer a general, system/model-independent, physical/observable-based approach to identify structural properties of quiescent glasses and relate them to glassy dynamics.

Experimental Observation of Dynamical Localization in Laser-Kicked Molecular Rotors

NASA Astrophysics Data System (ADS)

Bitter, M.; Milner, V.

2016-09-01

The periodically kicked rotor is a paradigm system for studying quantum effects on classically chaotic dynamics. The wave function of the quantum rotor localizes in angular momentum space, similarly to Anderson localization of the electronic wave function in disordered solids. Here, we observe dynamical localization in a system of true quantum rotors by subjecting nitrogen molecules to periodic sequences of femtosecond pulses. Exponential distribution of the molecular angular momentum—the hallmark of dynamical localization—is measured directly by means of coherent Raman scattering. We demonstrate the suppressed rotational energy growth with the number of laser kicks and study the dependence of the localization length on the kick strength. Because of its quantum coherent nature, both timing and amplitude noise are shown to destroy the localization and revive the diffusive growth of energy.

Tumor aggressiveness and patient outcome in cancer of the pancreas assessed by dynamic 18F-FDG PET/CT.

PubMed

Epelbaum, Ron; Frenkel, Alex; Haddad, Riad; Sikorski, Natalia; Strauss, Ludwig G; Israel, Ora; Dimitrakopoulou-Strauss, Antonia

2013-01-01

This study aimed to assess the role of a quantitative dynamic PET model in pancreatic cancer as a potential index of tumor aggressiveness and predictor of survival. Seventy-one patients with (18)F-FDG-avid adenocarcinoma of the pancreas before treatment were recruited, including 27 with localized tumors (11 underwent pancreatectomy, and 16 had localized nonresectable tumors) and 44 with metastatic disease. Dynamic (18)F-FDG PET images were acquired over a 60-min period, followed by a whole-body PET/CT study. Quantitative data measurements were based on a 2-compartment model, and the following variables were calculated: VB (fractional blood volume in target area), K(1) and k(2) (kinetic membrane transport parameters), k(3) and k(4) (intracellular (18)F-FDG phosphorylation and dephosphorylation parameters, respectively), and (18)F-FDG INF (global (18)F-FDG influx). The single significant variable for overall survival (OS) in patients with localized disease was (18)F-FDG INF. Patients with a high (18)F-FDG INF (>0.033 min(-1)) had a median OS of 6 and 5 mo for nonresectable and resected tumors, respectively, versus 15 and 19 mo for a low (18)F-FDG INF in nonresectable and resected tumors, respectively (P < 0.04). In metastatic disease, multivariate analysis found VB, K(1), and k(3) to be significant variables for OS (P < 0.043, <0.031, and <0.009, respectively). Prognostic factors for OS in the entire group of patients that were significant at multivariate analysis were stage of disease, VB, K(1), and (18)F-FDG INF (P < 0.00035, <0.03, <0.024, and <0.008, respectively). Median OS for all patients with a high (18)F-FDG INF, low VB, and high K(1) was 3 mo, as opposed to 14 mo in patients with a low (18)F-FDG INF, high VB, and low K(1) (P < 0.021), irrespective of stage and resectability. Quantitative (18)F-FDG kinetic parameters measured by dynamic PET in newly diagnosed pancreatic cancer correlated with the aggressiveness of disease. The (18)F-FDG INF was the single most significant variable for OS in patients with localized disease, whether resectable or not.

Consequences of Energetic Frustration on the Ligand-Coupled Folding/Dimerization Dynamics of Allosteric Protein S100A12.

PubMed

Ren, Weitong; Li, Wenfei; Wang, Jun; Zhang, Jian; Wang, Wei

2017-10-26

Allosteric proteins are featured by energetic degeneracy of two (or more) functionally relevant conformations, therefore their energy landscapes are often locally frustrated. How such frustration affects the protein folding/binding dynamics is not well understood. Here, by using molecular simulations we study the consequences of local frustration in the dimerization dynamics of allosteric proteins based on a homodimer protein S100A12. Despite of the structural symmetry of the two EF-hand motifs in the three-dimensional structures, the S100A12 homodimer shows allosteric behaviors and local frustration only in half of its structural elements, i.e., the C-terminal EF-hand. We showed that such spatially asymmetric location of frustration leads to asymmetric dimerization pathways, in which the dimerization is dominantly initiated by the interchain binding of the minimally frustrated N-terminal EF-hands, achieving optimal balance between the requirements of rapid conformational switching and interchain assembling to the energy landscapes. We also showed that the local frustration, as represented by the double-basin topography of the energy landscape, gives rise to multiple cross-linked dimerization pathways, in which the dimerization is coupled with the allosteric motions of the C-terminal EF-hands. Binding of metal ions tends to reshape the energy landscape and modulate the dimerization pathways. In addition, by employing the frustratometer method, we showed that the highly frustrated residue-pairs in the C-terminal EF-hand are partially unfolded during the conformational transitions of the native homodimer, leading to lowing of free energy barrier. Our results revealed tight interplay between the local frustration of the energy landscape and the dimerization dynamics for allosteric proteins.

SDVSRM - a new SSRM based technique featuring dynamically adjusted, scanner synchronized sample voltages for measurement of actively operated devices.

PubMed

Doering, Stefan; Wachowiak, Andre; Roetz, Hagen; Eckl, Stefan; Mikolajick, Thomas

2018-06-01

Scanning spreading resistance microscopy (SSRM) with its high spatial resolution and high dynamic signal range is a powerful tool for two-dimensional characterization of semiconductor dopant areas. However, the application of the method is limited to devices in equilibrium condition, as the investigation of actively operated devices would imply potential differences within the device, whereas SSRM relies on a constant voltage difference between sample surface and probe tip. Furthermore, the standard preparation includes short circuiting of all device components, limiting applications to devices in equilibrium condition. In this work scanning dynamic voltage spreading resistance microscopy (SDVSRM), a new SSRM based two pass atomic force microscopy (AFM) technique is introduced, overcoming these limitations. Instead of short circuiting the samples during preparation, wire bond devices are used allowing for active control of the individual device components. SDVSRM consists of two passes. In the first pass the local sample surface voltage dependent on the dc biases applied to the components of the actively driven device is measured as in scanning voltage microscopy (SVM). The local spreading resistance is measured within the second pass, in which the afore obtained local surface voltage is used to dynamically adjust the terminal voltages of the device under test. This is done in a way that the local potential difference across the nano-electrical contact matches the software set SSRM measurement voltage, and at the same time, the internal voltage differences within the device under test are maintained. In this work the proof of the concept could be demonstrated by obtaining spreading resistance data of an actively driven photodiode test device. SDVSRM adds a higher level of flexibility in general to SSRM, as occurring differences in cross section surface voltage are taken into account. These differences are immanent for actively driven devices, but can also be present at standard, short circuited samples. Therefore, SDVSRM could improve the characterization under equilibrium conditions as well. Copyright © 2018. Published by Elsevier B.V.

FMR-driven spin pumping in Y3Fe5O12-based structures

NASA Astrophysics Data System (ADS)

Yang, Fengyuan; Hammel, P. Chris

2018-06-01

Ferromagnetic resonance driven spin pumping, a topic of steadily increasing interest since its emergence over two decades ago, remains one of the most exciting research fields in condensed matter physics. Among the many materials that have been explored for spin pumping, yttrium iron garnet (YIG) is one of the most extensively studied because of its exceptionally low magnetic damping and insulating nature. There is a great amount of literature in the spin pumping and related research fields, too broad for this review to cover. In this Topical Review, we focus on the YIG-based spin pumping results carried out by our groups, including: the mechanism and technical details of our off-axis sputtering technique for the growth of single-crystalline YIG epitaxial films with a high degree ordering, experimental evidence for the high quality of the YIG films, spin pumping results from YIG into various transition metals and their heterostructures, dynamic spin transport in YIG/antiferromagnet hybrid structures, intralayer spin pumping by localized spin wave modes confined by a micromagnetic probe, dynamic spin coupling between YIG and nitrogen-vacancy centers in diamond, parametric spin pumping from high-wavevector spin waves in YIG, and localized spin wave mode behavior in broadly tunable spatially complex magnetic configurations. These results build on the power and versatility of YIG spin pumping to improve our understanding of spin dynamics, spin currents, spin Hall physics, spin–orbit coupling, dynamic magnetic coupling, and the relationship between these phenomena in a broad range of materials, geometries, and settings.

Modeling, simulation, and high-autonomy control of a Martian oxygen production plant

NASA Technical Reports Server (NTRS)

Schooley, L. C.; Cellier, F. E.; Wang, F.-Y.; Zeigler, B. P.

1992-01-01

Progress on a project for the development of a high-autonomy intelligent command and control architecture for process plants used to produce oxygen from local planetary resources is reported. A distributed command and control architecture is being developed and implemented so that an oxygen production plant, or other equipment, can be reliably commanded and controlled over an extended time period in a high-autonomy mode with high-level task-oriented teleoperation from one or several remote locations. During the reporting period, progress was made at all levels of the architecture. At the remote site, several remote observers can now participate in monitoring the plant. At the local site, a command and control center was introduced for increased flexibility, reliability, and robustness. The local control architecture was enhanced to control multiple tubes in parallel, and was refined for increased robustness. The simulation model was enhanced to full dynamics descriptions.

Tier 3 batch system data locality via managed caches

NASA Astrophysics Data System (ADS)

Fischer, Max; Giffels, Manuel; Jung, Christopher; Kühn, Eileen; Quast, Günter

2015-05-01

Modern data processing increasingly relies on data locality for performance and scalability, whereas the common HEP approaches aim for uniform resource pools with minimal locality, recently even across site boundaries. To combine advantages of both, the High- Performance Data Analysis (HPDA) Tier 3 concept opportunistically establishes data locality via coordinated caches. In accordance with HEP Tier 3 activities, the design incorporates two major assumptions: First, only a fraction of data is accessed regularly and thus the deciding factor for overall throughput. Second, data access may fallback to non-local, making permanent local data availability an inefficient resource usage strategy. Based on this, the HPDA design generically extends available storage hierarchies into the batch system. Using the batch system itself for scheduling file locality, an array of independent caches on the worker nodes is dynamically populated with high-profile data. Cache state information is exposed to the batch system both for managing caches and scheduling jobs. As a result, users directly work with a regular, adequately sized storage system. However, their automated batch processes are presented with local replications of data whenever possible.

Cortical localization of cognitive function by regression of performance on event-related potentials

NASA Technical Reports Server (NTRS)

Montgomery, R. W.; Montgomery, L. D.; Guisado, R.

1992-01-01

This paper demonstrates a new method of mapping cortical localization of cognitive function, using electroencephalographic data. Cross-subject regression analyses are used to identify cortical sites and post-stimulus latencies where there is a high correlation between subjects' performance and their cognitive event-related potential amplitude. The procedure was tested using a mental arithmetic task and was found to identify essentially the same cortical regions that have been associated with such tasks on the basis of research with patients suffering localized cortical lesions. Thus, it appears to offer an inexpensive, noninvasive tool for exploring the dynamics of localization in neurologically normal subjects.

Structural domains and main-chain flexibility in prion proteins.

PubMed

Blinov, N; Berjanskii, M; Wishart, D S; Stepanova, M

2009-02-24

In this study we describe a novel approach to define structural domains and to characterize the local flexibility in both human and chicken prion proteins. The approach we use is based on a comprehensive theory of collective dynamics in proteins that was recently developed. This method determines the essential collective coordinates, which can be found from molecular dynamics trajectories via principal component analysis. Under this particular framework, we are able to identify the domains where atoms move coherently while at the same time to determine the local main-chain flexibility for each residue. We have verified this approach by comparing our results for the predicted dynamic domain systems with the computed main-chain flexibility profiles and the NMR-derived random coil indexes for human and chicken prion proteins. The three sets of data show excellent agreement. Additionally, we demonstrate that the dynamic domains calculated in this fashion provide a highly sensitive measure of protein collective structure and dynamics. Furthermore, such an analysis is capable of revealing structural and dynamic properties of proteins that are inaccessible to the conventional assessment of secondary structure. Using the collective dynamic simulation approach described here along with a high-temperature simulations of unfolding of human prion protein, we have explored whether locations of relatively low stability could be identified where the unfolding process could potentially be facilitated. According to our analysis, the locations of relatively low stability may be associated with the beta-sheet formed by strands S1 and S2 and the adjacent loops, whereas helix HC appears to be a relatively stable part of the protein. We suggest that this kind of structural analysis may provide a useful background for a more quantitative assessment of potential routes of spontaneous misfolding in prion proteins.

Comparative study on the dynamics and performances of Apis mellifera jemenitica and imported hybrid honeybee colonies in southwestern Saudi Arabia.

PubMed

Al-Ghamdi, Ahmad A; Adgaba, Nuru; Tadesse, Yilma; Getachew, Awraris; Al-Maktary, Anwer A

2017-07-01

The aims of this study were to assess the seasonal population dynamics and evaluate the performance of Apis mellifera jemenitica (local bee) and introduced hybrid honeybee colonies in the lowlands and highlands of southwestern Saudi Arabia. Data regarding the performance and population dynamics parameters such as brood and adult bee population, amounts of stored pollen and nectar were gathered from the two races (25 colonies of each) for one year (April 2013 through March 2014), and statistically tested. The results indicated that at low lands, local bee colonies maintained relatively high brood and adult bee populations ( P  < 0.05) than introduced honeybee colonies and produced more ( P  < 0.05) honey. The local bee colonies were able to hoard three times more ( P  < 0.05) pollen and built more ( P  < 0.05) queen cells than introduced bees in both the low and highland areas. The annual survival rate of local bee colonies was almost double ( P  < 0.05) than that of introduced honeybee colonies. Moreover, local bees had greater ( P  < 0.05) adult bee and brood populations than imported, throughout the year. The relatively good performance of local colonies could be due to their long year's adaptation to cope with resource scarcity and unpredictable environmental conditions of the regions. The possible reasons for the dwindling of the imported hybrid colonies could be due to continuing to exhibit adaptive characteristics of their original that might not fit well with the new environment.

Host-pathogen metapopulation dynamics suggest high elevation refugia for boreal toads

USGS Publications Warehouse

Mosher, Brittany A.; Bailey, Larissa L.; Muths, Erin L.; Huyvaert, Kathryn P

2018-01-01

Emerging infectious diseases are an increasingly common threat to wildlife. Chytridiomycosis, caused by the fungal pathogen Batrachochytrium dendrobatidis (Bd), is an emerging infectious disease that has been linked to amphibian declines around the world. Few studies exist that explore amphibian-Bd dynamics at the landscape scale, limiting our ability to identify which factors are associated with variation in population susceptibility and to develop effective in situdisease management. Declines of boreal toads (Anaxyrus boreas boreas) in the Southern Rocky Mountains are largely attributed to chytridiomycosis but variation exists in local extinction of boreal toads across this metapopulation. Using a large-scale historic dataset, we explored several potential factors influencing disease dynamics in the boreal toad-Bd system: geographic isolation of populations, amphibian community richness, elevational differences, and habitat permanence. We found evidence that boreal toad extinction risk was lowest at high elevations where temperatures may be sub-optimal for Bd growth and where small boreal toad populations may be below the threshold needed for efficient pathogen transmission. In addition, boreal toads were more likely to recolonize high elevation sites after local extinction, again suggesting that high elevations may provide refuge from disease for boreal toads. We illustrate a modeling framework that will be useful to natural resource managers striving to make decisions in amphibian-Bdsystems. Our data suggest that in the southern Rocky Mountains high elevation sites should be prioritized for conservation initiatives like reintroductions.

Protein Dynamics from NMR: The Slowly Relaxing Local Structure Analysis Compared with Model-Free Analysis

PubMed Central

Meirovitch, Eva; Shapiro, Yury E.; Polimeno, Antonino; Freed, Jack H.

2009-01-01

15N-1H spin relaxation is a powerful method for deriving information on protein dynamics. The traditional method of data analysis is model-free (MF), where the global and local N-H motions are independent and the local geometry is simplified. The common MF analysis consists of fitting single-field data. The results are typically field-dependent, and multi-field data cannot be fit with standard fitting schemes. Cases where known functional dynamics has not been detected by MF were identified by us and others. Recently we applied to spin relaxation in proteins the Slowly Relaxing Local Structure (SRLS) approach which accounts rigorously for mode-mixing and general features of local geometry. SRLS was shown to yield MF in appropriate asymptotic limits. We found that the experimental spectral density corresponds quite well to the SRLS spectral density. The MF formulae are often used outside of their validity ranges, allowing small data sets to be force-fitted with good statistics but inaccurate best-fit parameters. This paper focuses on the mechanism of force-fitting and its implications. It is shown that MF force-fits the experimental data because mode-mixing, the rhombic symmetry of the local ordering and general features of local geometry are not accounted for. Combined multi-field multi-temperature data analyzed by MF may lead to the detection of incorrect phenomena, while conformational entropy derived from MF order parameters may be highly inaccurate. On the other hand, fitting to more appropriate models can yield consistent physically insightful information. This requires that the complexity of the theoretical spectral densities matches the integrity of the experimental data. As shown herein, the SRLS densities comply with this requirement. PMID:16821820

Detecting many-body-localization lengths with cold atoms

NASA Astrophysics Data System (ADS)

Guo, Xuefei; Li, Xiaopeng

2018-03-01

Considering ultracold atoms in optical lattices, we propose experimental protocols to study many-body-localization (MBL) length and criticality in quench dynamics. Through numerical simulations with exact diagonalization, we show that in the MBL phase the perturbed density profile following a local quench remains exponentially localized in postquench dynamics. The size of this density profile after long-time-dynamics defines a localization length, which tends to diverge at the MBL-to-ergodic transition as we increase the system size. The determined localization transition point agrees with previous exact diagonalization calculations using other diagnostics. Our numerical results provide evidence for violation of the Harris-Chayes bound for the MBL criticality. The critical exponent ν can be extracted from our proposed dynamical procedure, which can then be used directly in experiments to determine whether the Harris-Chayes-bound holds for the MBL transition. These proposed protocols to detect localization criticality are justified by benchmarking to the well-established results for the noninteracting three-dimensional Anderson localization.

Crossfit analysis: a novel method to characterize the dynamics of induced plant responses.

PubMed

Jansen, Jeroen J; van Dam, Nicole M; Hoefsloot, Huub C J; Smilde, Age K

2009-12-16

Many plant species show induced responses that protect them against exogenous attacks. These responses involve the production of many different bioactive compounds. Plant species belonging to the Brassicaceae family produce defensive glucosinolates, which may greatly influence their favorable nutritional properties for humans. Each responding compound may have its own dynamic profile and metabolic relationships with other compounds. The chemical background of the induced response is therefore highly complex and may therefore not reveal all the properties of the response in any single model. This study therefore aims to describe the dynamics of the glucosinolate response, measured at three time points after induction in a feral Brassica, by a three-faceted approach, based on Principal Component Analysis. First the large-scale aspects of the response are described in a 'global model' and then each time-point in the experiment is individually described in 'local models' that focus on phenomena that occur at specific moments in time. Although each local model describes the variation among the plants at one time-point as well as possible, the response dynamics are lost. Therefore a novel method called the 'Crossfit' is described that links the local models of different time-points to each other. Each element of the described analysis approach reveals different aspects of the response. The crossfit shows that smaller dynamic changes may occur in the response that are overlooked by global models, as illustrated by the analysis of a metabolic profiling dataset of the same samples.

Crossfit analysis: a novel method to characterize the dynamics of induced plant responses

PubMed Central

2009-01-01

Background Many plant species show induced responses that protect them against exogenous attacks. These responses involve the production of many different bioactive compounds. Plant species belonging to the Brassicaceae family produce defensive glucosinolates, which may greatly influence their favorable nutritional properties for humans. Each responding compound may have its own dynamic profile and metabolic relationships with other compounds. The chemical background of the induced response is therefore highly complex and may therefore not reveal all the properties of the response in any single model. Results This study therefore aims to describe the dynamics of the glucosinolate response, measured at three time points after induction in a feral Brassica, by a three-faceted approach, based on Principal Component Analysis. First the large-scale aspects of the response are described in a 'global model' and then each time-point in the experiment is individually described in 'local models' that focus on phenomena that occur at specific moments in time. Although each local model describes the variation among the plants at one time-point as well as possible, the response dynamics are lost. Therefore a novel method called the 'Crossfit' is described that links the local models of different time-points to each other. Conclusions Each element of the described analysis approach reveals different aspects of the response. The crossfit shows that smaller dynamic changes may occur in the response that are overlooked by global models, as illustrated by the analysis of a metabolic profiling dataset of the same samples. PMID:20015363

Slow dynamics in translation-invariant quantum lattice models

NASA Astrophysics Data System (ADS)

Michailidis, Alexios A.; Žnidarič, Marko; Medvedyeva, Mariya; Abanin, Dmitry A.; Prosen, Tomaž; Papić, Z.

2018-03-01

Many-body quantum systems typically display fast dynamics and ballistic spreading of information. Here we address the open problem of how slow the dynamics can be after a generic breaking of integrability by local interactions. We develop a method based on degenerate perturbation theory that reveals slow dynamical regimes and delocalization processes in general translation invariant models, along with accurate estimates of their delocalization time scales. Our results shed light on the fundamental questions of the robustness of quantum integrable systems and the possibility of many-body localization without disorder. As an example, we construct a large class of one-dimensional lattice models where, despite the absence of asymptotic localization, the transient dynamics is exceptionally slow, i.e., the dynamics is indistinguishable from that of many-body localized systems for the system sizes and time scales accessible in experiments and numerical simulations.

Dynamical self-arrest in symmetric and asymmetric diblock copolymer melts using a replica approach within a local theory.

PubMed

Wu, Sangwook

2009-03-01

We investigate dynamical self-arrest in a diblock copolymer melt using a replica approach within a self-consistent local method based on dynamical mean-field theory (DMFT). The local replica approach effectively predicts (chiN)_{A} for dynamical self-arrest in a block copolymer melt for symmetric and asymmetric cases. We discuss the competition of the cubic and quartic interactions in the Landau free energy for a block copolymer melt in stabilizing a glassy state depending on the chain length. Our local replica theory provides a universal value for the dynamical self-arrest in block copolymer melts with (chiN)_{A} approximately 10.5+64N;{-3/10} for the symmetric case.

Delivery of video-on-demand services using local storages within passive optical networks.

PubMed

Abeywickrama, Sandu; Wong, Elaine

2013-01-28

At present, distributed storage systems have been widely studied to alleviate Internet traffic build-up caused by high-bandwidth, on-demand applications. Distributed storage arrays located locally within the passive optical network were previously proposed to deliver Video-on-Demand services. As an added feature, a popularity-aware caching algorithm was also proposed to dynamically maintain the most popular videos in the storage arrays of such local storages. In this paper, we present a new dynamic bandwidth allocation algorithm to improve Video-on-Demand services over passive optical networks using local storages. The algorithm exploits the use of standard control packets to reduce the time taken for the initial request communication between the customer and the central office, and to maintain the set of popular movies in the local storage. We conduct packet level simulations to perform a comparative analysis of the Quality-of-Service attributes between two passive optical networks, namely the conventional passive optical network and one that is equipped with a local storage. Results from our analysis highlight that strategic placement of a local storage inside the network enables the services to be delivered with improved Quality-of-Service to the customer. We further formulate power consumption models of both architectures to examine the trade-off between enhanced Quality-of-Service performance versus the increased power requirement from implementing a local storage within the network.

Soil nitrogen levels are linked to decomposition enzyme activities along an urban-remote tropical forest gradient

Treesearch

D. F. Cusack

2013-01-01

Urban areas in tropical regions are expanding rapidly, with significant potential to affect local ecosystem dynamics. In particular, nitrogen (N) availability may increase in urban-proximate forests because of atmospheric N deposition. Unlike temperate forests, many tropical forests on highly weathered soils have high background N availability, so plant growth is...

The role of reproductive plant traits and biotic interactions in the dynamics of semi-arid plant communities.

PubMed

Pueyo, Y; Kéfi, S; Díaz-Sierra, R; Alados, C L; Rietkerk, M

2010-12-01

The dynamics of semi-arid plant communities are determined by the interplay between competition and facilitation among plants. The sign and strength of these biotic interactions depend on plant traits. However, the relationships between plant traits and biotic interactions, and the consequences for plant communities are still poorly understood. Our objective here was to investigate, with a modelling approach, the role of plant reproductive traits on biotic interactions, and the consequences for processes such as plant succession and invasion. The dynamics of two plant types were modelled with a spatially-explicit integrodifferential model: (1) a plant with seed dispersal (colonizer of bare soil) and (2) a plant with local vegetative propagation (local competitor). Both plant types were involved in facilitation due to a local positive feedback between vegetation biomass and soil water availability, which promoted establishment and growth. Plants in the system also competed for limited water. The efficiency in water acquisition (dependent on reproductive and growth plant traits) determined which plant type dominated the community at the steady state. Facilitative interactions between plant types also played an important role in the community dynamics, promoting establishment in the driest conditions and recovery from low biomass. Plants with vegetative propagation took advantage of the ability of seed dispersers to establish on bare soil from a low initial biomass. Seed dispersers were good invaders, maintained high biomass at intermediate and high rainfall and showed a high ability in taking profit from the positive feedback originated by plants with vegetative propagation under the driest conditions. However, seed dispersers lost competitiveness with an increasing investment in fecundity. All together, our results showed that reproductive plant traits can affect the balance between facilitative and competitive interactions. Understanding this effect of plant traits on biotic interactions provides insights in processes such as plant succession and shrub encroachment. Copyright © 2010 Elsevier Inc. All rights reserved.

Characterization of dynamic changes of current source localization based on spatiotemporal fMRI constrained EEG source imaging

NASA Astrophysics Data System (ADS)

Nguyen, Thinh; Potter, Thomas; Grossman, Robert; Zhang, Yingchun

2018-06-01

Objective. Neuroimaging has been employed as a promising approach to advance our understanding of brain networks in both basic and clinical neuroscience. Electroencephalography (EEG) and functional magnetic resonance imaging (fMRI) represent two neuroimaging modalities with complementary features; EEG has high temporal resolution and low spatial resolution while fMRI has high spatial resolution and low temporal resolution. Multimodal EEG inverse methods have attempted to capitalize on these properties but have been subjected to localization error. The dynamic brain transition network (DBTN) approach, a spatiotemporal fMRI constrained EEG source imaging method, has recently been developed to address these issues by solving the EEG inverse problem in a Bayesian framework, utilizing fMRI priors in a spatial and temporal variant manner. This paper presents a computer simulation study to provide a detailed characterization of the spatial and temporal accuracy of the DBTN method. Approach. Synthetic EEG data were generated in a series of computer simulations, designed to represent realistic and complex brain activity at superficial and deep sources with highly dynamical activity time-courses. The source reconstruction performance of the DBTN method was tested against the fMRI-constrained minimum norm estimates algorithm (fMRIMNE). The performances of the two inverse methods were evaluated both in terms of spatial and temporal accuracy. Main results. In comparison with the commonly used fMRIMNE method, results showed that the DBTN method produces results with increased spatial and temporal accuracy. The DBTN method also demonstrated the capability to reduce crosstalk in the reconstructed cortical time-course(s) induced by neighboring regions, mitigate depth bias and improve overall localization accuracy. Significance. The improved spatiotemporal accuracy of the reconstruction allows for an improved characterization of complex neural activity. This improvement can be extended to any subsequent brain connectivity analyses used to construct the associated dynamic brain networks.

Polymer dynamics under cylindrical confinement featuring a locally repulsive surface: A quasielastic neutron scattering study

DOE PAGES

Krutyeva, M.; Pasini, S.; Monkenbusch, M.; ...

2017-02-02

We investigated the effect of intermediate cylindrical confinement with locally repulsive walls on the segmental and entanglement dynamics of a polymer melt by quasielastic neutron scattering. As a reference, we measured the corresponding polymer melt under identical conditions. The locally repulsive confinement was realized by hydrophilic anodic alumina nanopores with a diameter of 20 nm. The end-to-end distance of the hydrophobic infiltrated polyethylene-alt-propylene was close to this diameter. In the case of hard wall repulsion with negligible local attraction, several simulations predicted an acceleration of segmental dynamics close to the wall. Other than in attractive or neutral systems, where themore » segmental dynamics is slowed down, we found that the segmental dynamics in the nanopores is identical to the local mobility in the bulk. Even under very careful scrutiny, we could not find any acceleration of the surface-near segmental motion. On the larger time scale, the neutron spin-echo experiment showed that the Rouse relaxation was not altered by confinement effects. Moreover, the entanglement dynamics was not affected. Thus at moderate confinement conditions, facilitated by locally repulsive walls, the dynamics remains as in the bulk melt, a result that is not so clear from simulations.« less

Scaling law analysis of paraffin thin films on different surfaces

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dotto, M. E. R.; Camargo, S. S. Jr.

2010-01-15

The dynamics of paraffin deposit formation on different surfaces was analyzed based on scaling laws. Carbon-based films were deposited onto silicon (Si) and stainless steel substrates from methane (CH{sub 4}) gas using radio frequency plasma enhanced chemical vapor deposition. The different substrates were characterized with respect to their surface energy by contact angle measurements, surface roughness, and morphology. Paraffin thin films were obtained by the casting technique and were subsequently characterized by an atomic force microscope in noncontact mode. The results indicate that the morphology of paraffin deposits is strongly influenced by substrates used. Scaling laws analysis for coated substratesmore » present two distinct dynamics: a local roughness exponent ({alpha}{sub local}) associated to short-range surface correlations and a global roughness exponent ({alpha}{sub global}) associated to long-range surface correlations. The local dynamics is described by the Wolf-Villain model, and a global dynamics is described by the Kardar-Parisi-Zhang model. A local correlation length (L{sub local}) defines the transition between the local and global dynamics with L{sub local} approximately 700 nm in accordance with the spacing of planes measured from atomic force micrographs. For uncoated substrates, the growth dynamics is related to Edwards-Wilkinson model.« less

Role of string-like collective atomic motion on diffusion and structural relaxation in glass forming Cu-Zr alloys

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhang, Hao; Department of Chemical and Materials Engineering, University of Alberta, Edmonton, Alberta T6G 2V4; Zhong, Cheng

2015-04-28

We investigate Cu-Zr liquid alloys using molecular dynamics simulation and well-accepted embedded atom method potentials over a wide range of chemical composition and temperature as model metallic glass-forming (GF) liquids. As with other types of GF materials, the dynamics of these complex liquids are characterized by “dynamic heterogeneity” in the form of transient polymeric clusters of highly mobile atoms that are composed in turn of atomic clusters exhibiting string-like cooperative motion. In accordance with the string model of relaxation, an extension of the Adam-Gibbs (AG) model, changes in the activation free energy ΔG{sub a} with temperature of both the Cumore » and Zr diffusion coefficients D, and the alpha structural relaxation time τ{sub α} can be described to a good approximation by changes in the average string length, L. In particular, we confirm that the strings are a concrete realization of the abstract “cooperatively rearranging regions” of AG. We also find coexisting clusters of relatively “immobile” atoms that exhibit predominantly icosahedral local packing rather than the low symmetry packing of “mobile” atoms. These two distinct types of dynamic heterogeneity are then associated with different fluid structural states. Glass-forming liquids are thus analogous to polycrystalline materials where the icosahedrally packed regions correspond to crystal grains, and the strings reside in the relatively disordered grain boundary-like regions exterior to these locally well-ordered regions. A dynamic equilibrium between localized (“immobile”) and wandering (“mobile”) particles exists in the liquid so that the dynamic heterogeneity can be considered to be type of self-assembly process. We also characterize changes in the local atomic free volume in the course of string-like atomic motion to better understand the initiation and propagation of these fluid excitations.« less

Localized Spatio-Temporal Constraints for Accelerated CMR Perfusion

PubMed Central

Akçakaya, Mehmet; Basha, Tamer A.; Pflugi, Silvio; Foppa, Murilo; Kissinger, Kraig V.; Hauser, Thomas H.; Nezafat, Reza

2013-01-01

Purpose To develop and evaluate an image reconstruction technique for cardiac MRI (CMR)perfusion that utilizes localized spatio-temporal constraints. Methods CMR perfusion plays an important role in detecting myocardial ischemia in patients with coronary artery disease. Breath-hold k-t based image acceleration techniques are typically used in CMR perfusion for superior spatial/temporal resolution, and improved coverage. In this study, we propose a novel compressed sensing based image reconstruction technique for CMR perfusion, with applicability to free-breathing examinations. This technique uses local spatio-temporal constraints by regularizing image patches across a small number of dynamics. The technique is compared to conventional dynamic-by-dynamic reconstruction, and sparsity regularization using a temporal principal-component (pc) basis, as well as zerofilled data in multi-slice 2D and 3D CMR perfusion. Qualitative image scores are used (1=poor, 4=excellent) to evaluate the technique in 3D perfusion in 10 patients and 5 healthy subjects. On 4 healthy subjects, the proposed technique was also compared to a breath-hold multi-slice 2D acquisition with parallel imaging in terms of signal intensity curves. Results The proposed technique results in images that are superior in terms of spatial and temporal blurring compared to the other techniques, even in free-breathing datasets. The image scores indicate a significant improvement compared to other techniques in 3D perfusion (2.8±0.5 vs. 2.3±0.5 for x-pc regularization, 1.7±0.5 for dynamic-by-dynamic, 1.1±0.2 for zerofilled). Signal intensity curves indicate similar dynamics of uptake between the proposed method with a 3D acquisition and the breath-hold multi-slice 2D acquisition with parallel imaging. Conclusion The proposed reconstruction utilizes sparsity regularization based on localized information in both spatial and temporal domains for highly-accelerated CMR perfusion with potential utility in free-breathing 3D acquisitions. PMID:24123058

New maxillofacial infrared detection technologies

DOE Office of Scientific and Technical Information (OSTI.GOV)

Reshetnikov, A. P.; Kopylov, M. V.; Nasyrov, M. R., E-mail: marat.1994@me.com

At the dental clinic the infrared range radiation spectrum of tissues was used to study the dynamics of local temperature and structure of the skin, subcutaneous fat, and other tissues of the maxillofacial area in adult healthy volunteers and patients. In particular, we studied the dynamics of local temperature of mucous membranes of the mouth, teeth, and places in the mouth and dental structures in the norm and in various pathological conditions of the lips, gums, teeth, tongue, palate, and cheeks before, during and after chewing food, drinking water, medication, and inhalation of air. High safety and informational content ofmore » infrared thermography are prospective for the development of diagnostics in medicine. We have 3 new methods for infrared detection protected by patents in Russia.« less

Dynamical formation of spatially localized arrays of aligned nanowires in plastic films with magnetic anisotropy.

PubMed

Fragouli, Despina; Buonsanti, Raffaella; Bertoni, Giovanni; Sangregorio, Claudio; Innocenti, Claudia; Falqui, Andrea; Gatteschi, Dante; Cozzoli, Pantaleo Davide; Athanassiou, Athanassia; Cingolani, Roberto

2010-04-27

We present a simple technique for magnetic-field-induced formation, assembling, and positioning of magnetic nanowires in a polymer film. Starting from a polymer/iron oxide nanoparticle casted solution that is allowed to dry along with the application of a weak magnetic field, nanocomposite films incorporating aligned nanocrystal-built nanowire arrays are obtained. The control of the dimensions of the nanowires and of their localization across the polymer matrix is achieved by varying the duration of the applied magnetic field, in combination with the evaporation dynamics. These multifunctional anisotropic free-standing nanocomposite films, which demonstrate high magnetic anisotropy, can be used in a wide field of technological applications, ranging from sensors to microfluidics and magnetic devices.

High Density or Urban Sprawl: What Works Best in Biology?

PubMed

Oreopoulos, John; Gray-Owen, Scott D; Yip, Christopher M

2017-02-28

With new approaches in imaging-from new tools or reagents to processing algorithms-come unique opportunities and challenges to our understanding of biological processes, structures, and dynamics. Although innovations in super-resolution imaging are affording novel perspectives into how molecules structurally associate and localize in response to, or in order to initiate, specific signaling events in the cell, questions arise as to how to interpret these observations in the context of biological function. Just as each neighborhood in a city has its own unique vibe, culture, and indeed density, recent work has shown that membrane receptor behavior and action is governed by their localization and association state. There is tremendous potential in developing strategies for tracking how the populations of these molecular neighborhoods change dynamically.

New maxillofacial infrared detection technologies

NASA Astrophysics Data System (ADS)

Reshetnikov, A. P.; Kopylov, M. V.; Nasyrov, M. R.; Soicher, E. M.; Fisher, E. L.; Chernova, L. V.

2015-11-01

At the dental clinic the infrared range radiation spectrum of tissues was used to study the dynamics of local temperature and structure of the skin, subcutaneous fat, and other tissues of the maxillofacial area in adult healthy volunteers and patients. In particular, we studied the dynamics of local temperature of mucous membranes of the mouth, teeth, and places in the mouth and dental structures in the norm and in various pathological conditions of the lips, gums, teeth, tongue, palate, and cheeks before, during and after chewing food, drinking water, medication, and inhalation of air. High safety and informational content of infrared thermography are prospective for the development of diagnostics in medicine. We have 3 new methods for infrared detection protected by patents in Russia.

Memory-efficient dynamic programming backtrace and pairwise local sequence alignment.

PubMed

Newberg, Lee A

2008-08-15

A backtrace through a dynamic programming algorithm's intermediate results in search of an optimal path, or to sample paths according to an implied probability distribution, or as the second stage of a forward-backward algorithm, is a task of fundamental importance in computational biology. When there is insufficient space to store all intermediate results in high-speed memory (e.g. cache) existing approaches store selected stages of the computation, and recompute missing values from these checkpoints on an as-needed basis. Here we present an optimal checkpointing strategy, and demonstrate its utility with pairwise local sequence alignment of sequences of length 10,000. Sample C++-code for optimal backtrace is available in the Supplementary Materials. Supplementary data is available at Bioinformatics online.

Conditional Entropy and Location Error in Indoor Localization Using Probabilistic Wi-Fi Fingerprinting.

PubMed

Berkvens, Rafael; Peremans, Herbert; Weyn, Maarten

2016-10-02

Localization systems are increasingly valuable, but their location estimates are only useful when the uncertainty of the estimate is known. This uncertainty is currently calculated as the location error given a ground truth, which is then used as a static measure in sometimes very different environments. In contrast, we propose the use of the conditional entropy of a posterior probability distribution as a complementary measure of uncertainty. This measure has the advantage of being dynamic, i.e., it can be calculated during localization based on individual sensor measurements, does not require a ground truth, and can be applied to discrete localization algorithms. Furthermore, for every consistent location estimation algorithm, both the location error and the conditional entropy measures must be related, i.e., a low entropy should always correspond with a small location error, while a high entropy can correspond with either a small or large location error. We validate this relationship experimentally by calculating both measures of uncertainty in three publicly available datasets using probabilistic Wi-Fi fingerprinting with eight different implementations of the sensor model. We show that the discrepancy between these measures, i.e., many location estimates having a high location error while simultaneously having a low conditional entropy, is largest for the least realistic implementations of the probabilistic sensor model. Based on the results presented in this paper, we conclude that conditional entropy, being dynamic, complementary to location error, and applicable to both continuous and discrete localization, provides an important extra means of characterizing a localization method.

Conditional Entropy and Location Error in Indoor Localization Using Probabilistic Wi-Fi Fingerprinting

PubMed Central

Berkvens, Rafael; Peremans, Herbert; Weyn, Maarten

2016-01-01

Localization systems are increasingly valuable, but their location estimates are only useful when the uncertainty of the estimate is known. This uncertainty is currently calculated as the location error given a ground truth, which is then used as a static measure in sometimes very different environments. In contrast, we propose the use of the conditional entropy of a posterior probability distribution as a complementary measure of uncertainty. This measure has the advantage of being dynamic, i.e., it can be calculated during localization based on individual sensor measurements, does not require a ground truth, and can be applied to discrete localization algorithms. Furthermore, for every consistent location estimation algorithm, both the location error and the conditional entropy measures must be related, i.e., a low entropy should always correspond with a small location error, while a high entropy can correspond with either a small or large location error. We validate this relationship experimentally by calculating both measures of uncertainty in three publicly available datasets using probabilistic Wi-Fi fingerprinting with eight different implementations of the sensor model. We show that the discrepancy between these measures, i.e., many location estimates having a high location error while simultaneously having a low conditional entropy, is largest for the least realistic implementations of the probabilistic sensor model. Based on the results presented in this paper, we conclude that conditional entropy, being dynamic, complementary to location error, and applicable to both continuous and discrete localization, provides an important extra means of characterizing a localization method. PMID:27706099

Influence of confinement on polymer-electrolyte relaxational dynamics.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zanotti, J.-M.; Smith, L. J.; Price, D. L.

2004-01-01

Conception and industrial production of viable high specific energy/power batteries is a central issue for the development of non-polluting vehicles. In terms of stored energy and safety, solid-state devices using polymer electrolytes are highly desirable. One of the most studied systems is PEO (polyethylene oxide) complexed by Li salts. Polymer segmental motions and ionic conductivity are closely related. Bulk PEO is actually a biphasic system where an amorphous and a crystalline state (Tm 335 K) coexist. To improve ionic conduction in those systems requires a significant increase of the amorphous phase fraction where lithium conduction is known to mainly takemore » place. Confinement strongly affects properties of condensed matter and in particular the collective phenomena inducing crystallization. Confinement of the polymer matrix is therefore a possible alternative route to the unpractical use of high temperature. Results of a quasi-elastic incoherent neutron scattering study of the influence of confinement on polyethylene oxide (PEO) and (PEO)8Li+[(CF3SO2)2N]- (or (POE)8LiTFSI) dynamics are presented. The nano-confining media is Vycor, a silica based hydrophilic porous glass (characteristic size of the 3D pore network 50 {angstrom}). As expected, the presence of Li salt slows down the bulk polymer dynamics. The confinement also affects dramatically the apparent mean-square displacement of the polymer. Local relaxational PEO dynamics is described KWW model. We also present an alternate model and show how the detailed polymer dynamics (correlation times and local geometry of the motions) can be described without the use of such stretched exponentials so as to access a rheology-related meaningful physical quantity: the monomeric friction coefficient.« less

Local cortical dynamics of burst suppression in the anaesthetized brain.

PubMed

Lewis, Laura D; Ching, Shinung; Weiner, Veronica S; Peterfreund, Robert A; Eskandar, Emad N; Cash, Sydney S; Brown, Emery N; Purdon, Patrick L

2013-09-01

Burst suppression is an electroencephalogram pattern that consists of a quasi-periodic alternation between isoelectric 'suppressions' lasting seconds or minutes, and high-voltage 'bursts'. It is characteristic of a profoundly inactivated brain, occurring in conditions including hypothermia, deep general anaesthesia, infant encephalopathy and coma. It is also used in neurology as an electrophysiological endpoint in pharmacologically induced coma for brain protection after traumatic injury and during status epilepticus. Classically, burst suppression has been regarded as a 'global' state with synchronous activity throughout cortex. This assumption has influenced the clinical use of burst suppression as a way to broadly reduce neural activity. However, the extent of spatial homogeneity has not been fully explored due to the challenges in recording from multiple cortical sites simultaneously. The neurophysiological dynamics of large-scale cortical circuits during burst suppression are therefore not well understood. To address this question, we recorded intracranial electrocorticograms from patients who entered burst suppression while receiving propofol general anaesthesia. The electrodes were broadly distributed across cortex, enabling us to examine both the dynamics of burst suppression within local cortical regions and larger-scale network interactions. We found that in contrast to previous characterizations, bursts could be substantially asynchronous across the cortex. Furthermore, the state of burst suppression itself could occur in a limited cortical region while other areas exhibited ongoing continuous activity. In addition, we found a complex temporal structure within bursts, which recapitulated the spectral dynamics of the state preceding burst suppression, and evolved throughout the course of a single burst. Our observations imply that local cortical dynamics are not homogeneous, even during significant brain inactivation. Instead, cortical and, implicitly, subcortical circuits express seemingly different sensitivities to high doses of anaesthetics that suggest a hierarchy governing how the brain enters burst suppression, and emphasize the role of local dynamics in what has previously been regarded as a global state. These findings suggest a conceptual shift in how neurologists could assess the brain function of patients undergoing burst suppression. First, analysing spatial variation in burst suppression could provide insight into the circuit dysfunction underlying a given pathology, and could improve monitoring of medically-induced coma. Second, analysing the temporal dynamics within a burst could help assess the underlying brain state. This approach could be explored as a prognostic tool for recovery from coma, and for guiding treatment of status epilepticus. Overall, these results suggest new research directions and methods that could improve patient monitoring in clinical practice.

Improved methods for estimating local terrestrial water dynamics from GRACE in the Northern High Plains

NASA Astrophysics Data System (ADS)

Seyoum, Wondwosen M.; Milewski, Adam M.

2017-12-01

Investigating terrestrial water cycle dynamics is vital for understanding the recent climatic variability and human impacts in the hydrologic cycle. In this study, a downscaling approach was developed and tested, to improve the applicability of terrestrial water storage (TWS) anomaly data from the Gravity Recovery and Climate Experiment (GRACE) satellite mission for understanding local terrestrial water cycle dynamics in the Northern High Plains region. A non-parametric, artificial neural network (ANN)-based model, was utilized to downscale GRACE data by integrating it with hydrological variables (e.g. soil moisture) derived from satellite and land surface model data. The downscaling model, constructed through calibration and sensitivity analysis, was used to estimate TWS anomaly for watersheds ranging from 5000 to 20,000 km2 in the study area. The downscaled water storage anomaly data were evaluated using water storage data derived from an (1) integrated hydrologic model, (2) land surface model (e.g. Noah), and (3) storage anomalies calculated from in-situ groundwater level measurements. Results demonstrate the ANN predicts monthly TWS anomaly within the uncertainty (conservative error estimate = 34 mm) for most of the watersheds. Seasonal derived groundwater storage anomaly (GWSA) from the ANN correlated well (r = ∼0.85) with GWSAs calculated from in-situ groundwater level measurements for a watershed size as small as 6000 km2. ANN downscaled TWSA matches closely with Noah-based TWSA compared to standard GRACE extracted TWSA at a local scale. Moreover, the ANN-downscaled change in TWS replicated the water storage variability resulting from the combined effect of climatic and human impacts (e.g. abstraction). The implications of utilizing finer resolution GRACE data for improving local and regional water resources management decisions and applications are clear, particularly in areas lacking in-situ hydrologic monitoring networks.

Entropy, energy, and entanglement of localized states in bent triatomic molecules

NASA Astrophysics Data System (ADS)

Yuan, Qiang; Hou, Xi-Wen

2017-05-01

The dynamics of quantum entropy, energy, and entanglement is studied for various initial states in an important spectroscopic Hamiltonian of bent triatomic molecules H2O, D2O, and H2S. The total quantum correlation is quantified in terms of the mutual information and the entanglement by the concurrence borrowed from the theory of quantum information. The Pauli entropy and the intramolecular energy usually used in the theory of molecules are calculated to establish a possible relationship between both theories. Sections of two quantities among these four quantities are introduced to visualize such relationship. Analytic and numerical simulations demonstrate that if an initial state is taken to be the stretch- or the bend-vibrationally localized state, the mutual information, the Pauli entropy, and the concurrence are dominant-positively correlated while they are dominantly anti-correlated with the interacting energy among three anharmonic vibrational modes. In particular, such correlation is more distinct for the localized state with high excitations in the bending mode. The nice quasi-periodicity of those quantities in D2O molecule reveals that this molecule prepared in the localized state in the stretching or the bending mode can be more appreciated for molecular quantum computation. However, the dynamical correlations of those quantities behave irregularly for the dislocalized states. Moreover, the hierarchy of the mutual information and the Pauli entropy is explicitly proved. Quantum entropy and energy in every vibrational mode are investigated. Thereby, the relation between bipartite and tripartite entanglements is discussed as well. Those are useful for the understanding of quantum correlations in high-dimensional states in polyatomic molecules from quantum information and intramolecular dynamics.

LES of a Jet Excited by the Localized Arc Filament Plasma Actuators

NASA Technical Reports Server (NTRS)

Brown, Clifford A.

2011-01-01

The fluid dynamics of a high-speed jet are governed by the instability waves that form in the free-shear boundary layer of the jet. Jet excitation manipulates the growth and saturation of particular instability waves to control the unsteady flow structures that characterize the energy cascade in the jet.The results may include jet noise mitigation or a reduction in the infrared signature of the jet. The Localized Arc Filament Plasma Actuators (LAFPA) have demonstrated the ability to excite a high-speed jets in laboratory experiments. Extending and optimizing this excitation technology, however, is a complex process that will require many tests and trials. Computational simulations can play an important role in understanding and optimizing this actuator technology for real-world applications. Previous research has focused on developing a suitable actuator model and coupling it with the appropriate computational fluid dynamics (CFD) methods using two-dimensional spatial flow approximations. This work is now extended to three-dimensions (3-D) in space. The actuator model is adapted to a series of discrete actuators and a 3-D LES simulation of an excited jet is run. The results are used to study the fluid dynamics near the actuator and in the jet plume.

Astronomical and atmospheric impacts on deep-sea hydrothermal vent invertebrates

PubMed Central

Legendre, Pierre; Matabos, Marjolaine; Mihály, Steve; Lee, Raymond W.; Sarradin, Pierre-Marie; Arango, Claudia P.; Sarrazin, Jozée

2017-01-01

Ocean tides and winter surface storms are among the main factors driving the dynamics and spatial structure of marine coastal species, but the understanding of their impact on deep-sea and hydrothermal vent communities is still limited. Multidisciplinary deep-sea observatories offer an essential tool to study behavioural rhythms and interactions between hydrothermal community dynamics and environmental fluctuations. Here, we investigated whether species associated with a Ridgeia piscesae tubeworm vent assemblage respond to local ocean dynamics. By tracking variations in vent macrofaunal abundance at different temporal scales, we provide the first evidence that tides and winter surface storms influence the distribution patterns of mobile and non-symbiotic hydrothermal species (i.e. pycnogonids Sericosura sp. and Polynoidae polychaetes) at more than 2 km depth. Local ocean dynamics affected the mixing between hydrothermal fluid inputs and surrounding seawater, modifying the environmental conditions in vent habitats. We suggest that hydrothermal species respond to these habitat modifications by adjusting their behaviour to ensure optimal living conditions. This behaviour may reflect a specific adaptation of vent species to their highly variable habitat. PMID:28381618

Communication: Relationship between solute localization and diffusion in a dynamically constrained polymer system

DOE Office of Scientific and Technical Information (OSTI.GOV)

Saylor, David M.; Jawahery, Sudi; Silverstein, Joshua S.

2016-07-21

We investigate the link between dynamic localization, characterized by the Debye–Waller factor, 〈u{sup 2}〉, and solute self-diffusivity, D, in a polymer system using atomistic molecular dynamics simulations and vapor sorption experiments. We find a linear relationship between lnD and 1/〈u{sup 2}〉 over more than four decades of D, encompassing most of the glass formation regime. The observed linearity is consistent with the Langevin dynamics in a periodically varying potential field and may offer a means to rapidly assess diffusion based on the characterization of dynamic localization.

A new similarity index for nonlinear signal analysis based on local extrema patterns

NASA Astrophysics Data System (ADS)

Niknazar, Hamid; Motie Nasrabadi, Ali; Shamsollahi, Mohammad Bagher

2018-02-01

Common similarity measures of time domain signals such as cross-correlation and Symbolic Aggregate approximation (SAX) are not appropriate for nonlinear signal analysis. This is because of the high sensitivity of nonlinear systems to initial points. Therefore, a similarity measure for nonlinear signal analysis must be invariant to initial points and quantify the similarity by considering the main dynamics of signals. The statistical behavior of local extrema (SBLE) method was previously proposed to address this problem. The SBLE similarity index uses quantized amplitudes of local extrema to quantify the dynamical similarity of signals by considering patterns of sequential local extrema. By adding time information of local extrema as well as fuzzifying quantized values, this work proposes a new similarity index for nonlinear and long-term signal analysis, which extends the SBLE method. These new features provide more information about signals and reduce noise sensitivity by fuzzifying them. A number of practical tests were performed to demonstrate the ability of the method in nonlinear signal clustering and classification on synthetic data. In addition, epileptic seizure detection based on electroencephalography (EEG) signal processing was done by the proposed similarity to feature the potentials of the method as a real-world application tool.

Climate change in metacommunities: dispersal gives double-sided effects on persistence.

PubMed

Eklöf, Anna; Kaneryd, Linda; Münger, Peter

2012-11-05

Climate change is increasingly affecting the structure and dynamics of ecological communities both at local and at regional scales, and this can be expected to have important consequences for their robustness and long-term persistence. The aim of the present work is to analyse how the spatial structure of the landscape and dispersal patterns of species (dispersal rate and average dispersal distance) affects metacommunity response to two disturbances: (i) increased mortality during dispersal and (ii) local species extinction. We analyse the disturbances both in isolation and in combination. Using a spatially and dynamically explicit metacommunity model, we find that the effect of dispersal on metacommunity persistence is two-sided: on the one hand, high dispersal significantly reduces the risk of bottom-up extinction cascades following the local removal of a species; on the other hand, when dispersal imposes a risk to the dispersing individuals, high dispersal increases extinction risks, especially when dispersal is global. Large-bodied species with long generation times at the highest trophic level are particularly vulnerable to extinction when dispersal involves a risk. This suggests that decreasing the mortality risk of dispersing individuals by improving the quality of the habitat matrix may greatly increase the robustness of metacommunities.

Dynamics of vapor plume in transient keyhole during laser welding of stainless steel: Local evaporation, plume swing and gas entrapment into porosity

NASA Astrophysics Data System (ADS)

Pang, Shengyong; Chen, Xin; Shao, Xinyu; Gong, Shuili; Xiao, Jianzhong

2016-07-01

In order to better understand the local evaporation phenomena of keyhole wall, vapor plume swing above the keyhole and ambient gas entrapment into the porosity defects, the 3D time-dependent dynamics of the metallic vapor plume in a transient keyhole during fiber laser welding is numerically investigated. The vapor dynamical parameters, including the velocity and pressure, are successfully predicted and obtain good agreements with the experimental and literature data. It is found that the vapor plume flow inside the keyhole has complex multiple directions, and this various directions characteristic of the vapor plume is resulted from the dynamic evaporation phenomena with variable locations and orientations on the keyhole wall. The results also demonstrate that because of this dynamic local evaporation, the ejected vapor plume from the keyhole opening is usually in high frequency swinging. The results further indicate that the oscillation frequency of the plume swing angle is around 2.0-8.0 kHz, which is of the same order of magnitude with that of the keyhole depth (2.0-5.0 kHz). This consistency clearly shows that the swing of the ejected vapor plume is closely associated with the keyhole instability during laser welding. Furthermore, it is learned that there is usually a negative pressure region (several hundred Pa lower than the atmospheric pressure) of the vapor flow around the keyhole opening. This pressure could lead to a strong vortex flow near the rear keyhole wall, especially when the velocity of the ejected metallic vapor from the keyhole opening is high. Under the effect of this flow, the ambient gas is involved into the keyhole, and could finally be entrapped into the bubbles within a very short time (<0.2 ms) due to the complex flow inside the keyhole.

On the dynamics of StemBells: Microbubble-conjugated stem cells for ultrasound-controlled delivery

NASA Astrophysics Data System (ADS)

Kokhuis, Tom J. A.; Naaijkens, Benno A.; Juffermans, Lynda J. M.; Kamp, Otto; van der Steen, Antonius F. W.; Versluis, Michel; de Jong, Nico

2017-07-01

The use of stem cells for regenerative tissue repair is promising but hampered by the low number of cells delivered to the site of injury. To increase the delivery, we propose a technique in which stem cells are linked to functionalized microbubbles, creating echogenic complex dubbed StemBells. StemBells are highly susceptible to acoustic radiation force which can be employed after injection to push the StemBells locally to the treatment site. To optimally benefit from the delivery technique, a thorough characterization of the dynamics of StemBells during ultrasound exposure is needed. Using high-speed optical imaging, we study the dynamics of StemBells as a function of the applied frequency from which resonance curves were constructed. A theoretical model, based on a modified Rayleigh-Plesset type equation, captured the experimental resonance characteristics and radial dynamics in detail.

MODELING LONG-TERM DYNAMICS OF LITTER ACCUMULATION IN RESPONSE TO STATIC AND VARIABLE HYDROPERIODS

EPA Science Inventory

Accumulated litter from emergent species like the cattail hybrid (Typha glauca Godr.) can influence local abiotic conditions, other biota, and ecosystem processes. Litter accumulation results from high production coupled with slow breakdown rates. Wetland managers regularly mani...

Self-trapping and tunneling of Bose-Einstein condensates in a cavity-mediated triple-well system

NASA Astrophysics Data System (ADS)

Wang, Bin; Zhang, Hui; Chen, Yan; Tan, Lei

2017-03-01

We have investigated tunneling characteristics of Bose-Einstein condensates (BECs) in a triple-well potential coupled to a high finesse optical cavity within a mean field approach. Due to the intrinsic atom-cavity field nonlinearity, several interesting phenomena arise which are the focuses of this work. In the dynamical process, an extensive numerical simulation of localization of the BECs for atoms initially trapped in one-, two-, and three-wells are performed for the symmetric and asymmetric cases in detail. It is shown that the the transition from the oscillation to the localization can be modified by the cavity-mediated potential, which will enlarge the regions of oscillation. With the increasing of the atomic interaction, the oscillation is blocked and the localization emerges. The condensates atoms can be trapped either in one-, two-, or in three wells eventually where they are initially uploaded for certain parameters. In particular, we find that the transition from the oscillation to the localization is accompanied with some irregular regime where tunneling dynamics is dominated by chaos for this cavity-mediated system.

The Cora Lake Shear Zone: Strain Localization in an Ultramylonitic, Deep Crustal Shear Zone, Athabasca Granulite Terrain, Western Churchill Province, Canada

NASA Astrophysics Data System (ADS)

Regan, S.; Williams, M. L.; Mahan, K. H.; Orlandini, O. F.; Jercinovic, M. J.; Leslie, S. R.; Holland, M.

2012-12-01

Ultramylonitic shear zones typically involve intense strain localization, and when developed over large regions can introduce considerable heterogeneity into the crust. The Cora Lake shear zone (CLsz) displays several 10's to 100's of meters-wide zones of ultramylonite distributed throughout its full 3-5 km mylonitized width. Detailed mapping, petrography, thermobarometry, and in-situ monazite geochronology suggest that it formed during the waning phases of granulite grade metamorphism and deformation, within one of North America's largest exposures of polydeformed lower continental crust. Anastomosing zones of ultramylonite contain recrystallized grain-sizes approaching the micron scale and might appear to suggest lower temperature mylonitization. However, feldspar and even clinopyroxene are dynamically recrystallized, and quantitative thermobarometry of syn-deformational assemblages indicate high P and T conditions ranging from 0.9 -10.6 GPa and 775-850 °C. Even at these high T's, dynamic recovery and recrystallization were extremely limited. Rocks with low modal quartz have extremely small equilibrium volumes. This is likely the result of inefficient diffusion, which is further supported by the unannealed nature of the crystals. Local carbonate veins suggests that H2O poor, CO2 rich conditions may have aided in the preservation of fine grain sizes, and may have inhibited dynamic recovery and recrystallization. The Cora Lake shear zone is interpreted to have been relatively strong and to have hardened during progressive deformation. Garnet is commonly fractured perpendicular to host rock fabric, and statically replaced by both biotite and muscovite. Pseudotachylite, with the same sense of shear, occurs in several ultramylonitized mafic granulites. Thus, cataclasis and frictional melt are interpreted to have been produced in the lower continental crust, not during later reactivation. We suggest that strengthening of rheologically stiffer lithologies led to extreme localization, and potentially earthquakes in quartz-absent hardened lithologies. Cora Lake shearing represents the culmination of a deformation trend of increasing strength, strain partitioning, and localization within a polydeformed, strengthened lower continental crust.

A tone mapping operator based on neural and psychophysical models of visual perception

NASA Astrophysics Data System (ADS)

Cyriac, Praveen; Bertalmio, Marcelo; Kane, David; Vazquez-Corral, Javier

2015-03-01

High dynamic range imaging techniques involve capturing and storing real world radiance values that span many orders of magnitude. However, common display devices can usually reproduce intensity ranges only up to two to three orders of magnitude. Therefore, in order to display a high dynamic range image on a low dynamic range screen, the dynamic range of the image needs to be compressed without losing details or introducing artefacts, and this process is called tone mapping. A good tone mapping operator must be able to produce a low dynamic range image that matches as much as possible the perception of the real world scene. We propose a two stage tone mapping approach, in which the first stage is a global method for range compression based on a gamma curve that equalizes the lightness histogram the best, and the second stage performs local contrast enhancement and color induction using neural activity models for the visual cortex.

Hybrid particle-continuum simulations coupling Brownian dynamics and local dynamic density functional theory.

PubMed

Qi, Shuanhu; Schmid, Friederike

2017-11-08

We present a multiscale hybrid particle-field scheme for the simulation of relaxation and diffusion behavior of soft condensed matter systems. It combines particle-based Brownian dynamics and field-based local dynamics in an adaptive sense such that particles can switch their level of resolution on the fly. The switching of resolution is controlled by a tuning function which can be chosen at will according to the geometry of the system. As an application, the hybrid scheme is used to study the kinetics of interfacial broadening of a polymer blend, and is validated by comparing the results to the predictions from pure Brownian dynamics and pure local dynamics calculations.

Modeling Long-Term Fluvial Incision : Shall we Care for the Details of Short-Term Fluvial Dynamics?

NASA Astrophysics Data System (ADS)

Lague, D.; Davy, P.

2008-12-01

Fluvial incision laws used in numerical models of coupled climate, erosion and tectonics systems are mainly based on the family of stream power laws for which the rate of local erosion E is a power function of the topographic slope S and the local mean discharge Q : E = K Qm Sn. The exponents m and n are generally taken as (0.35, 0.7) or (0.5, 1), and K is chosen such that the predicted topographic elevation given the prevailing rates of precipitation and tectonics stay within realistic values. The resulting topographies are reasonably realistic, and the coupled system dynamics behaves somehow as expected : more precipitation induces increased erosion and localization of the deformation. Yet, if we now focus on smaller scale fluvial dynamics (the reach scale), recent advances have suggested that discharge variability, channel width dynamics or sediment flux effects may play a significant role in controlling incision rates. These are not factored in the simple stream power law model. In this work, we study how these short- term details propagate into long-term incision dynamics within the framework of surface/tectonics coupled numerical models. To upscale the short term dynamics to geological timescales, we use a numerical model of a trapezoidal river in which vertical and lateral incision processes are computed from fluid shear stress at a daily timescale, sediment transport and protection effects are factored in, as well as a variable discharge. We show that the stream power law model might still be a valid model but that as soon as realistic effects are included such as a threshold for sediment transport, variable discharge and dynamic width the resulting exponents m and n can be as high as 2 and 4. This high non-linearity has a profound consequence on the sensitivity of fluvial relief to incision rate. We also show that additional complexity does not systematically translates into more non-linear behaviour. For instance, considering only a dynamical width without discharge variability does not induce a significant difference in the predicted long-term incision law and scaling of relief with incision rate at steady-state. We conclude that the simple stream power law models currently in use are false, and that details of short-term fluvial dynamics must make their way into long-term evolution models to avoid oversimplifying the coupled dynamics between erosion, tectonics and climate.

Finite metapopulation models with density-dependent migration and stochastic local dynamics

PubMed Central

Saether, B.-E.; Engen, S.; Lande, R.

1999-01-01

The effects of small density-dependent migration on the dynamics of a metapopulation are studied in a model with stochastic local dynamics. We use a diffusion approximation to study how changes in the migration rate and habitat occupancy affect the rates of local colonization and extinction. If the emigration rate increases or if the immigration rate decreases with local population size, a positive expected rate of change in habitat occupancy is found for a greater range of habitat occupancies than when the migration is density-independent. In contrast, the reverse patterns of density dependence in respective emigration and immigration reduce the range of habitat occupancies where the metapopulation will be viable. This occurs because density-dependent migration strongly influences both the establishment and rescue effects in the local dynamics of metapopulations.

Fast Entanglement Establishment via Local Dynamics for Quantum Repeater Networks

NASA Astrophysics Data System (ADS)

Gyongyosi, Laszlo; Imre, Sandor

Quantum entanglement is a necessity for future quantum communication networks, quantum internet, and long-distance quantum key distribution. The current approaches of entanglement distribution require high-delay entanglement transmission, entanglement swapping to extend the range of entanglement, high-cost entanglement purification, and long-lived quantum memories. We introduce a fundamental protocol for establishing entanglement in quantum communication networks. The proposed scheme does not require entanglement transmission between the nodes, high-cost entanglement swapping, entanglement purification, or long-lived quantum memories. The protocol reliably establishes a maximally entangled system between the remote nodes via dynamics generated by local Hamiltonians. The method eliminates the main drawbacks of current schemes allowing fast entanglement establishment with a minimized delay. Our solution provides a fundamental method for future long-distance quantum key distribution, quantum repeater networks, quantum internet, and quantum-networking protocols. This work was partially supported by the GOP-1.1.1-11-2012-0092 project sponsored by the EU and European Structural Fund, by the Hungarian Scientific Research Fund - OTKA K-112125, and by the COST Action MP1006.

A new physical model with multilayer architecture for facial expression animation using dynamic adaptive mesh.

PubMed

Zhang, Yu; Prakash, Edmond C; Sung, Eric

2004-01-01

This paper presents a new physically-based 3D facial model based on anatomical knowledge which provides high fidelity for facial expression animation while optimizing the computation. Our facial model has a multilayer biomechanical structure, incorporating a physically-based approximation to facial skin tissue, a set of anatomically-motivated facial muscle actuators, and underlying skull structure. In contrast to existing mass-spring-damper (MSD) facial models, our dynamic skin model uses the nonlinear springs to directly simulate the nonlinear visco-elastic behavior of soft tissue and a new kind of edge repulsion spring is developed to prevent collapse of the skin model. Different types of muscle models have been developed to simulate distribution of the muscle force applied on the skin due to muscle contraction. The presence of the skull advantageously constrain the skin movements, resulting in more accurate facial deformation and also guides the interactive placement of facial muscles. The governing dynamics are computed using a local semi-implicit ODE solver. In the dynamic simulation, an adaptive refinement automatically adapts the local resolution at which potential inaccuracies are detected depending on local deformation. The method, in effect, ensures the required speedup by concentrating computational time only where needed while ensuring realistic behavior within a predefined error threshold. This mechanism allows more pleasing animation results to be produced at a reduced computational cost.

Non-local detection of spin dynamics via spin rectification effect in yttrium iron garnet/SiO{sub 2}/NiFe trilayers near simultaneous ferromagnetic resonance

DOE Office of Scientific and Technical Information (OSTI.GOV)

Soh, Wee Tee, E-mail: a0046479@u.nus.edu; Ong, C. K.; Peng, Bin

2015-08-15

The spin rectification effect (SRE), a phenomenon that generates dc voltages from ac microwave fields incident onto a conducting ferromagnet, has attracted widespread attention due to its high sensitivity to ferromagnetic resonance (FMR) as well as its relevance to spintronics. Here, we report the non-local detection of yttrium iron garnet (YIG) spin dynamics by measuring SRE voltages from an adjacent conducting NiFe layer up to 200 nm thick. In particular, we detect, within the NiFe layer, SRE voltages stemming from magnetostatic surface spin waves (MSSWs) of the adjacent bulk YIG which are excited by a shorted coaxial probe. These non-localmore » SRE voltages within the NiFe layer that originates from YIG MSSWs are present even in 200 nm-thick NiFe films with a 50 nm thick SiO{sub 2} spacer between NiFe and YIG, thus strongly ruling out the mechanism of spin-pumping induced inverse spin Hall effect in NiFe as the source of these voltages. This long-range influence of YIG dynamics is suggested to be mediated by dynamic fields generated from YIG spin precession near YIG/NiFe interface, which interacts with NiFe spins near the simultaneous resonance of both spins, to generate a non-local SRE voltage within the NiFe layer.« less

Selected Problems in Nonlinear Dynamics and Sociophysics

NASA Astrophysics Data System (ADS)

Westley, Alexandra Renee

This Ph.D. dissertation focuses on a collection of problems on the dynamical behavior of nonlinear many-body systems, drawn from two substantially different areas. First, the dynamical behavior seen in strongly nonlinear lattices such as in the Fermi-Pasta-Ulam-Tsingou (FPUT) system (part I) and second, time evolution behavior of interacting living objects which can be broadly considered as sociophysics systems (part II). The studies on FPUT-like systems will comprise of five chapters, dedicated to the properties of solitary and anti-solitary waves in the system, how localized nonlinear excitations decay and spread throughout these lattices, how two colliding solitary waves can precipitate highly localized and stable excitations, a possible alternative way to view these localized excitations through Duffing oscillators, and finally an exploration of parametric resonance in an FPUT-like lattice. Part II consists of two problems in the context of sociophysics. I use molecular dynamics inspired simulations to study the size and the stability of social groups of chimpanzees (such as those seen in central Africa) and compare the results with existing observations on the stability of chimpanzee societies. Secondly, I use an agent-based model to simulate land battles between an intelligent army and an insurgency when both have access to equally powerful weaponry. The study considers genetic algorithm based adaptive strategies to infer the strategies needed for the intelligent army to win the battles.

Locally optimal control under unknown dynamics with learnt cost function: application to industrial robot positioning

NASA Astrophysics Data System (ADS)

Guérin, Joris; Gibaru, Olivier; Thiery, Stéphane; Nyiri, Eric

2017-01-01

Recent methods of Reinforcement Learning have enabled to solve difficult, high dimensional, robotic tasks under unknown dynamics using iterative Linear Quadratic Gaussian control theory. These algorithms are based on building a local time-varying linear model of the dynamics from data gathered through interaction with the environment. In such tasks, the cost function is often expressed directly in terms of the state and control variables so that it can be locally quadratized to run the algorithm. If the cost is expressed in terms of other variables, a model is required to compute the cost function from the variables manipulated. We propose a method to learn the cost function directly from the data, in the same way as for the dynamics. This way, the cost function can be defined in terms of any measurable quantity and thus can be chosen more appropriately for the task to be carried out. With our method, any sensor information can be used to design the cost function. We demonstrate the efficiency of this method through simulating, with the V-REP software, the learning of a Cartesian positioning task on several industrial robots with different characteristics. The robots are controlled in joint space and no model is provided a priori. Our results are compared with another model free technique, consisting in writing the cost function as a state variable.

The Influence of Chemical Modification on Linker Rotational Dynamics in Metal-Organic Frameworks.

PubMed

Damron, Joshua T; Ma, Jialiu; Kurz, Ricardo; Saalwächter, Kay; Matzger, Adam J; Ramamoorthy, Ayyalusamy

2018-05-21

The robust synthetic flexibility of metal-organic frameworks (MOFs) offers a promising class of tailorable materials, for which the ability to tune specific physicochemical properties is highly desired. This is achievable only through a thorough description of the consequences for chemical manipulations both in structure and dynamics. Magic angle spinning solid-state NMR spectroscopy offers many modalities in this pursuit, particularly for dynamic studies. Herein, we employ a separated-local-field NMR approach to show how specific intraframework chemical modifications to MOF UiO-66 heavily modulate the dynamic evolution of the organic ring moiety over several orders of magnitude. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Thermodynamic Modeling and Dispatch of Distributed Energy Technologies including Fuel Cell -- Gas Turbine Hybrids

NASA Astrophysics Data System (ADS)

McLarty, Dustin Fogle

Distributed energy systems are a promising means by which to reduce both emissions and costs. Continuous generators must be responsive and highly efficiency to support building dynamics and intermittent on-site renewable power. Fuel cell -- gas turbine hybrids (FC/GT) are fuel-flexible generators capable of ultra-high efficiency, ultra-low emissions, and rapid power response. This work undertakes a detailed study of the electrochemistry, chemistry and mechanical dynamics governing the complex interaction between the individual systems in such a highly coupled hybrid arrangement. The mechanisms leading to the compressor stall/surge phenomena are studied for the increased risk posed to particular hybrid configurations. A novel fuel cell modeling method introduced captures various spatial resolutions, flow geometries, stack configurations and novel heat transfer pathways. Several promising hybrid configurations are analyzed throughout the work and a sensitivity analysis of seven design parameters is conducted. A simple estimating method is introduced for the combined system efficiency of a fuel cell and a turbine using component performance specifications. Existing solid oxide fuel cell technology is capable of hybrid efficiencies greater than 75% (LHV) operating on natural gas, and existing molten carbonate systems greater than 70% (LHV). A dynamic model is calibrated to accurately capture the physical coupling of a FC/GT demonstrator tested at UC Irvine. The 2900 hour experiment highlighted the sensitivity to small perturbations and a need for additional control development. Further sensitivity studies outlined the responsiveness and limits of different control approaches. The capability for substantial turn-down and load following through speed control and flow bypass with minimal impact on internal fuel cell thermal distribution is particularly promising to meet local demands or provide dispatchable support for renewable power. Advanced control and dispatch heuristics are discussed using a case study of the UCI central plant. Thermal energy storage introduces a time horizon into the dispatch optimization which requires novel solution strategies. Highly efficient and responsive generators are required to meet the increasingly dynamic loads of today's efficient buildings and intermittent local renewable wind and solar power. Fuel cell gas turbine hybrids will play an integral role in the complex and ever-changing solution to local electricity production.

A Parallel, Multi-Scale Watershed-Hydrologic-Inundation Model with Adaptively Switching Mesh for Capturing Flooding and Lake Dynamics

NASA Astrophysics Data System (ADS)

Ji, X.; Shen, C.

2017-12-01

Flood inundation presents substantial societal hazards and also changes biogeochemistry for systems like the Amazon. It is often expensive to simulate high-resolution flood inundation and propagation in a long-term watershed-scale model. Due to the Courant-Friedrichs-Lewy (CFL) restriction, high resolution and large local flow velocity both demand prohibitively small time steps even for parallel codes. Here we develop a parallel surface-subsurface process-based model enhanced by multi-resolution meshes that are adaptively switched on or off. The high-resolution overland flow meshes are enabled only when the flood wave invades to floodplains. This model applies semi-implicit, semi-Lagrangian (SISL) scheme in solving dynamic wave equations, and with the assistant of the multi-mesh method, it also adaptively chooses the dynamic wave equation only in the area of deep inundation. Therefore, the model achieves a balance between accuracy and computational cost.

Weighted Distance Functions Improve Analysis of High-Dimensional Data: Application to Molecular Dynamics Simulations.

PubMed

Blöchliger, Nicolas; Caflisch, Amedeo; Vitalis, Andreas

2015-11-10

Data mining techniques depend strongly on how the data are represented and how distance between samples is measured. High-dimensional data often contain a large number of irrelevant dimensions (features) for a given query. These features act as noise and obfuscate relevant information. Unsupervised approaches to mine such data require distance measures that can account for feature relevance. Molecular dynamics simulations produce high-dimensional data sets describing molecules observed in time. Here, we propose to globally or locally weight simulation features based on effective rates. This emphasizes, in a data-driven manner, slow degrees of freedom that often report on the metastable states sampled by the molecular system. We couple this idea to several unsupervised learning protocols. Our approach unmasks slow side chain dynamics within the native state of a miniprotein and reveals additional metastable conformations of a protein. The approach can be combined with most algorithms for clustering or dimensionality reduction.

Disconnecting structure and dynamics in glassy thin films

PubMed Central

Sussman, Daniel M.; Cubuk, Ekin D.; Liu, Andrea J.

2017-01-01

Nanometrically thin glassy films depart strikingly from the behavior of their bulk counterparts. We investigate whether the dynamical differences between a bulk and thin film polymeric glass former can be understood by differences in local microscopic structure. Machine learning methods have shown that local structure can serve as the foundation for successful, predictive models of particle rearrangement dynamics in bulk systems. By contrast, in thin glassy films, we find that particles at the center of the film and those near the surface are structurally indistinguishable despite exhibiting very different dynamics. Next, we show that structure-independent processes, already present in bulk systems and demonstrably different from simple facilitated dynamics, are crucial for understanding glassy dynamics in thin films. Our analysis suggests a picture of glassy dynamics in which two dynamical processes coexist, with relative strengths that depend on the distance from an interface. One of these processes depends on local structure and is unchanged throughout most of the film, while the other is purely Arrhenius, does not depend on local structure, and is strongly enhanced near the free surface of a film. PMID:28928147

A Metascalable Computing Framework for Large Spatiotemporal-Scale Atomistic Simulations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nomura, K; Seymour, R; Wang, W

2009-02-17

A metascalable (or 'design once, scale on new architectures') parallel computing framework has been developed for large spatiotemporal-scale atomistic simulations of materials based on spatiotemporal data locality principles, which is expected to scale on emerging multipetaflops architectures. The framework consists of: (1) an embedded divide-and-conquer (EDC) algorithmic framework based on spatial locality to design linear-scaling algorithms for high complexity problems; (2) a space-time-ensemble parallel (STEP) approach based on temporal locality to predict long-time dynamics, while introducing multiple parallelization axes; and (3) a tunable hierarchical cellular decomposition (HCD) parallelization framework to map these O(N) algorithms onto a multicore cluster based onmore » hybrid implementation combining message passing and critical section-free multithreading. The EDC-STEP-HCD framework exposes maximal concurrency and data locality, thereby achieving: (1) inter-node parallel efficiency well over 0.95 for 218 billion-atom molecular-dynamics and 1.68 trillion electronic-degrees-of-freedom quantum-mechanical simulations on 212,992 IBM BlueGene/L processors (superscalability); (2) high intra-node, multithreading parallel efficiency (nanoscalability); and (3) nearly perfect time/ensemble parallel efficiency (eon-scalability). The spatiotemporal scale covered by MD simulation on a sustained petaflops computer per day (i.e. petaflops {center_dot} day of computing) is estimated as NT = 2.14 (e.g. N = 2.14 million atoms for T = 1 microseconds).« less

Local thermal energy as a structural indicator in glasses

NASA Astrophysics Data System (ADS)

Zylberg, Jacques; Lerner, Edan; Bar-Sinai, Yohai; Bouchbinder, Eran

2017-07-01

Identifying heterogeneous structures in glasses—such as localized soft spots—and understanding structure-dynamics relations in these systems remain major scientific challenges. Here, we derive an exact expression for the local thermal energy of interacting particles (the mean local potential energy change caused by thermal fluctuations) in glassy systems by a systematic low-temperature expansion. We show that the local thermal energy can attain anomalously large values, inversely related to the degree of softness of localized structures in a glass, determined by a coupling between internal stresses—an intrinsic signature of glassy frustration—anharmonicity and low-frequency vibrational modes. These anomalously large values follow a fat-tailed distribution, with a universal exponent related to the recently observed universal ω4ω4 density of states of quasilocalized low-frequency vibrational modes. When the spatial thermal energy field—a “softness field”—is considered, this power law tail manifests itself by highly localized spots, which are significantly softer than their surroundings. These soft spots are shown to be susceptible to plastic rearrangements under external driving forces, having predictive powers that surpass those of the normal modes-based approach. These results offer a general, system/model-independent, physical/observable-based approach to identify structural properties of quiescent glasses and relate them to glassy dynamics.

Dynamic large eddy simulation: Stability via realizability

NASA Astrophysics Data System (ADS)

Mokhtarpoor, Reza; Heinz, Stefan

2017-10-01

The concept of dynamic large eddy simulation (LES) is highly attractive: such methods can dynamically adjust to changing flow conditions, which is known to be highly beneficial. For example, this avoids the use of empirical, case dependent approximations (like damping functions). Ideally, dynamic LES should be local in physical space (without involving artificial clipping parameters), and it should be stable for a wide range of simulation time steps, Reynolds numbers, and numerical schemes. These properties are not trivial, but dynamic LES suffers from such problems over decades. We address these questions by performing dynamic LES of periodic hill flow including separation at a high Reynolds number Re = 37 000. For the case considered, the main result of our studies is that it is possible to design LES that has the desired properties. It requires physical consistency: a PDF-realizable and stress-realizable LES model, which requires the inclusion of the turbulent kinetic energy in the LES calculation. LES models that do not honor such physical consistency can become unstable. We do not find support for the previous assumption that long-term correlations of negative dynamic model parameters are responsible for instability. Instead, we concluded that instability is caused by the stable spatial organization of significant unphysical states, which are represented by wall-type gradient streaks of the standard deviation of the dynamic model parameter. The applicability of our realizability stabilization to other dynamic models (including the dynamic Smagorinsky model) is discussed.

Dynamic stability and bifurcation analysis in fractional thermodynamics

NASA Astrophysics Data System (ADS)

Béda, Péter B.

2018-02-01

In mechanics, viscoelasticity was the first field of applications in studying geomaterials. Further possibilities arise in spatial non-locality. Non-local materials were already studied in the 1960s by several authors as a part of continuum mechanics and are still in focus of interest because of the rising importance of materials with internal micro- and nano-structure. When material instability gained more interest, non-local behavior appeared in a different aspect. The problem was concerned to numerical analysis, because then instability zones exhibited singular properties for local constitutive equations. In dynamic stability analysis, mathematical aspects of non-locality were studied by using the theory of dynamic systems. There the basic set of equations describing the behavior of continua was transformed to an abstract dynamic system consisting of differential operators acting on the perturbation field variables. Such functions should satisfy homogeneous boundary conditions and act as indicators of stability of a selected state of the body under consideration. Dynamic systems approach results in conditions for cases, when the differential operators have critical eigenvalues of zero real parts (dynamic stability or instability conditions). When the critical eigenvalues have non-trivial eigenspace, the way of loss of stability is classified as a typical (or generic) bifurcation. Our experiences show that material non-locality and the generic nature of bifurcation at instability are connected, and the basic functions of the non-trivial eigenspace can be used to determine internal length quantities of non-local mechanics. Fractional calculus is already successfully used in thermo-elasticity. In the paper, non-locality is introduced via fractional strain into the constitutive relations of various conventional types. Then, by defining dynamic systems, stability and bifurcation are studied for states of thermo-mechanical solids. Stability conditions and genericity conditions are presented for constitutive relations under consideration.

Evaluating the application of multi-satellite observation in hydrologic modeling

USDA-ARS?s Scientific Manuscript database

When monitoring local or regional hydrosphere dynamics for applications such as agricultural productivity or drought and flooding events, it is necessary to have accurate, high-resolution estimates of terrestrial water and energy storages. Though in-situ observations provide reliable estimates of hy...

High-Efficiency High-Resolution Global Model Developments at the NASA Goddard Data Assimilation Office

NASA Technical Reports Server (NTRS)

Lin, Shian-Jiann; Atlas, Robert (Technical Monitor)

2002-01-01

The Data Assimilation Office (DAO) has been developing a new generation of ultra-high resolution General Circulation Model (GCM) that is suitable for 4-D data assimilation, numerical weather predictions, and climate simulations. These three applications have conflicting requirements. For 4-D data assimilation and weather predictions, it is highly desirable to run the model at the highest possible spatial resolution (e.g., 55 km or finer) so as to be able to resolve and predict socially and economically important weather phenomena such as tropical cyclones, hurricanes, and severe winter storms. For climate change applications, the model simulations need to be carried out for decades, if not centuries. To reduce uncertainty in climate change assessments, the next generation model would also need to be run at a fine enough spatial resolution that can at least marginally simulate the effects of intense tropical cyclones. Scientific problems (e.g., parameterization of subgrid scale moist processes) aside, all three areas of application require the model's computational performance to be dramatically improved as compared to the previous generation. In this talk, I will present the current and future developments of the "finite-volume dynamical core" at the Data Assimilation Office. This dynamical core applies modem monotonicity preserving algorithms and is genuinely conservative by construction, not by an ad hoc fixer. The "discretization" of the conservation laws is purely local, which is clearly advantageous for resolving sharp gradient flow features. In addition, the local nature of the finite-volume discretization also has a significant advantage on distributed memory parallel computers. Together with a unique vertically Lagrangian control volume discretization that essentially reduces the dimension of the computational problem from three to two, the finite-volume dynamical core is very efficient, particularly at high resolutions. I will also present the computational design of the dynamical core using a hybrid distributed-shared memory programming paradigm that is portable to virtually any of today's high-end parallel super-computing clusters.

High-Efficiency High-Resolution Global Model Developments at the NASA Goddard Data Assimilation Office

NASA Technical Reports Server (NTRS)

Lin, Shian-Jiann; Atlas, Robert (Technical Monitor)

2002-01-01

The Data Assimilation Office (DAO) has been developing a new generation of ultra-high resolution General Circulation Model (GCM) that is suitable for 4-D data assimilation, numerical weather predictions, and climate simulations. These three applications have conflicting requirements. For 4-D data assimilation and weather predictions, it is highly desirable to run the model at the highest possible spatial resolution (e.g., 55 kin or finer) so as to be able to resolve and predict socially and economically important weather phenomena such as tropical cyclones, hurricanes, and severe winter storms. For climate change applications, the model simulations need to be carried out for decades, if not centuries. To reduce uncertainty in climate change assessments, the next generation model would also need to be run at a fine enough spatial resolution that can at least marginally simulate the effects of intense tropical cyclones. Scientific problems (e.g., parameterization of subgrid scale moist processes) aside, all three areas of application require the model's computational performance to be dramatically improved as compared to the previous generation. In this talk, I will present the current and future developments of the "finite-volume dynamical core" at the Data Assimilation Office. This dynamical core applies modem monotonicity preserving algorithms and is genuinely conservative by construction, not by an ad hoc fixer. The "discretization" of the conservation laws is purely local, which is clearly advantageous for resolving sharp gradient flow features. In addition, the local nature of the finite-volume discretization also has a significant advantage on distributed memory parallel computers. Together with a unique vertically Lagrangian control volume discretization that essentially reduces the dimension of the computational problem from three to two, the finite-volume dynamical core is very efficient, particularly at high resolutions. I will also present the computational design of the dynamical core using a hybrid distributed- shared memory programming paradigm that is portable to virtually any of today's high-end parallel super-computing clusters.

Experimental and numerical study on vibration of the full-revolving propulsion ship stern

NASA Astrophysics Data System (ADS)

Liu, Chang-qing; Che, Chi-dong; Shen, Xiao-han

2015-03-01

In order to solve the severe vibration problems of an ocean engineering ship with a full-revolving propulsion system, the navigation tests, including forced vibration response test and modal test, are carried out in its stern. It is concluded from the comparison of the time-domain waveform and spectrum from different measurement points that three main factors lead to a high-level stern vibration. Firstly, the specific dynamic stiffness of a water tank is relatively small compared with its neighbor hold, which makes it act like a vibration isolator preventing vibrational energy transmitting to the main hold. Secondly, there exists high-density local modes in the working frequency range of the main engine and thus the local resonance occurs. Thirdly, the abnormal engagement of gears caused by the large deflection of the shaft bearing due to its low mounting rigidity leads to violent extra impulse excitations at high speeds. Then the modification against the dynamic defects is given by simply improving the specific stiffness of the water tanks. And the effect is validated by the FEM calculation. Some important experience is obtained with the problems being solved, which is useful in the design of ships with the same propulsion system. It is also believed that the dynamic consideration is as important as the static analysis for the ships, and that most of the vibration problems may be avoided with a proper acoustic design.

Pathways of Atlantic Waters in the Nordic seas: locally eddy-permitting ocean simulation in a global setup

NASA Astrophysics Data System (ADS)

Wekerle, C.; Wang, Q.; Danilov, S.; Jung, T.; Schourup-Kristensen, V.

2016-02-01

Atlantic Water (AW) passes through the Nordic Seas and enters the Arctic Ocean through the shallow Barents Sea and the deep Fram Strait. Since the 1990's, observations indicate a series of anomalously warm pulses of Atlantic Water that entered the Arctic Ocean. In fact, poleward oceanic heat transport may even increase in the future, which might have implications for the heat uptake in the Arctic Ocean as well as for the sea ice cover. The ability of models to faithfully simulate the pathway of the AW and accompanying dynamics is thus of high climate relevance. In this study, we explore the potential of a global multi-resolution sea ice-ocean model with a locally eddy-permitting resolution (around 4.5 km) in the Nordic seas region and Arctic Ocean in improving the representation of Atlantic Water inflow, and more broadly, the dynamics of the circulation in the Northern North Atlantic and Arctic. The simulation covers the time period 1969-2009. We find that locally increased resolution improves the localization and thickness of the Atlantic Water layer in the Nordic seas, compared with a 20 km resolution reference simulation. In particular, the inflow of Atlantic Waters through the Greenland Scotland Ridge and the narrow branches of the Norwegian Atlantic Current can be realistically represented. Lateral spreading due to simulated eddies essentially reduces the bias in the surface temperature. In addition, a qualitatively good agreement of the simulated eddy kinetic energy field with observations can be achieved. This study indicates that a substantial improvement in representing local ocean dynamics can be reached through the local refinement, which requires a rather moderate computational effort. The successful model assessment allows us to further investigate the variability and mechanisms behind Atlantic Water transport into the Arctic Ocean.

Local invariants in non-ideal flows of neutral fluids and two-fluid plasmas

NASA Astrophysics Data System (ADS)

Zhu, Jian-Zhou

2018-03-01

The main objective is the locally invariant geometric object of any (magneto-)fluid dynamics with forcing and damping (nonideal), while more attention is paid to the untouched dynamical properties of two-fluid fashion. Specifically, local structures, beyond the well-known "frozen-in" to the barotropic flows of the generalized vorticities, of the two-fluid model of plasma flows are presented. More general non-barotropic situations are also considered. A modified Euler equation [T. Tao, "Finite time blowup for Lagrangian modifications of the three-dimensional Euler equation," Ann. PDE 2, 9 (2016)] is also accordingly analyzed and remarked from the angle of view of the two-fluid model, with emphasis on the local structures. The local constraints of high-order differential forms such as helicity, among others, find simple formulation for possible practices in modeling the dynamics. Thus, the Cauchy invariants equation [N. Besse and U. Frisch, "Geometric formulation of the Cauchy invariants for incompressible Euler flow in flat and curved spaces," J. Fluid Mech. 825, 412 (2017)] may be enabled to find applications in non-ideal flows. Some formal examples are offered to demonstrate the calculations, and particularly interestingly the two-dimensional-three-component (2D3C) or the 2D passive scalar problem presents that a locally invariant Θ = 2θζ, with θ and ζ being, respectively, the scalar value of the "vertical velocity" (or the passive scalar) and the "vertical vorticity," may be used as if it were the spatial density of the globally invariant helicity, providing a Lagrangian prescription to control the latter in some situations of studying its physical effects in rapidly rotating flows (ubiquitous in atmosphere of astrophysical objects) with marked 2D3C vortical modes or in purely 2D passive scalars.

The Discriminant Value of Phase-Dependent Local Dynamic Stability of Daily Life Walking in Older Adult Community-Dwelling Fallers and Nonfallers

PubMed Central

Ihlen, Espen A. F.; Weiss, Aner; Helbostad, Jorunn L.; Hausdorff, Jeffrey M.

2015-01-01

The present study compares phase-dependent measures of local dynamic stability of daily life walking with 35 conventional gait features in their ability to discriminate between community-dwelling older fallers and nonfallers. The study reanalyzes 3D-acceleration data of 3-day daily life activity from 39 older people who reported less than 2 falls during one year and 31 who reported two or more falls. Phase-dependent local dynamic stability was defined for initial perturbation at 0%, 20%, 40%, 60%, and 80% of the step cycle. A partial least square discriminant analysis (PLS-DA) was used to compare the discriminant abilities of phase-dependent local dynamic stability with the discriminant abilities of 35 conventional gait features. The phase-dependent local dynamic stability λ at 0% and 60% of the step cycle discriminated well between fallers and nonfallers (AUC = 0.83) and was significantly larger (p < 0.01) for the nonfallers. Furthermore, phase-dependent λ discriminated as well between fallers and nonfallers as all other gait features combined. The present result suggests that phase-dependent measures of local dynamic stability of daily life walking might be of importance for further development in early fall risk screening tools. PMID:26491669

Dynamic behavior of the interaction between epidemics and cascades on heterogeneous networks

NASA Astrophysics Data System (ADS)

Jiang, Lurong; Jin, Xinyu; Xia, Yongxiang; Ouyang, Bo; Wu, Duanpo

2014-12-01

Epidemic spreading and cascading failure are two important dynamical processes on complex networks. They have been investigated separately for a long time. But in the real world, these two dynamics sometimes may interact with each other. In this paper, we explore a model combined with the SIR epidemic spreading model and a local load sharing cascading failure model. There exists a critical value of the tolerance parameter for which the epidemic with high infection probability can spread out and infect a fraction of the network in this model. When the tolerance parameter is smaller than the critical value, the cascading failure cuts off the abundance of paths and blocks the spreading of the epidemic locally. While the tolerance parameter is larger than the critical value, the epidemic spreads out and infects a fraction of the network. A method for estimating the critical value is proposed. In simulations, we verify the effectiveness of this method in the uncorrelated configuration model (UCM) scale-free networks.

Experimental investigation of the displacement dynamics during biphasic flow in porous media

NASA Astrophysics Data System (ADS)

Ayaz, Monem; Toussaint, Renaud; Måløy, Knut-Jørgen; Schafer, Gerhard

2016-04-01

We experimentally study the interface dynamics of an immiscible fluid as it displaces a fully saturated porous medium. The system is confined by a vertically oriented Hele-Shaw cell, with piezoelectric type acoustic sensors mounted along the centerline. During drainage potential surface energy is stored at the interface up to a given threshold in pressure, at which an instability occurs as new pores are invaded and the radius of curvature of the interface increases locally, the energy gets released, and part of this energy is detectable as acoustic emission. By detecting pore-scale events emanating from the interface at various points, we look to develop techniques for localizing the displacement front. To assess the quality, optical monitoring is done using a high speed camera.In our study we also aim to gain further insight into the interface dynamics by varying parameters such as the effective gravity, and the invasion speed and using other methods of probing the system such as active tomography. We here present our preliminary results of this study.

Navigation of autonomous vehicles for oil spill cleaning in dynamic and uncertain environments

NASA Astrophysics Data System (ADS)

Jin, Xin; Ray, Asok

2014-04-01

In the context of oil spill cleaning by autonomous vehicles in dynamic and uncertain environments, this paper presents a multi-resolution algorithm that seamlessly integrates the concepts of local navigation and global navigation based on the sensory information; the objective here is to enable adaptive decision making and online replanning of vehicle paths. The proposed algorithm provides a complete coverage of the search area for clean-up of the oil spills and does not suffer from the problem of having local minima, which is commonly encountered in potential-field-based methods. The efficacy of the algorithm is tested on a high-fidelity player/stage simulator for oil spill cleaning in a harbour, where the underlying oil weathering process is modelled as 2D random-walk particle tracking. A preliminary version of this paper was presented by X. Jin and A. Ray as 'Coverage Control of Autonomous Vehicles for Oil Spill Cleaning in Dynamic and Uncertain Environments', Proceedings of the American Control Conference, Washington, DC, June 2013, pp. 2600-2605.

Chloride ions induce order-disorder transition at water-oxide interfaces

NASA Astrophysics Data System (ADS)

Deshmukh, Sanket; Kamath, Ganesh; Ramanathan, Shriram; Sankaranarayanan, Subramanian K. R. S.

2013-12-01

Water can form quasi-two-dimensional ordered layers near a solid interface. The solvation dynamics and ionic transport phenomena through this ordered water structure is of direct relevance to a variety of problems in interface science. Molecular dynamics simulations are used to study the impact of local fluctuation of the chloride ion density in the vicinity of an oxide surface on the structure and dynamics of water layers. We demonstrate that local increase in chloride ions beyond a threshold concentration near the water-MgO (100) interface introduces an order-disorder transition of this two-dimensional layered network into bulklike water, leading to increased diffusional characteristics and reduced hydrogen bonding lifetimes. We find that the extent of this order-disorder transition can be tuned by modifying the defect chemistry and nature of the underlying substrate. The kinetic fluidity resulting from order-disorder transition at high chloride ion concentration has significance for a broad range of phenomena, ranging from freezing point depression of brine to onset of aqueous corrosion.

Short-time quantum dynamics of sharp boundaries potentials

NASA Astrophysics Data System (ADS)

Granot, Er'el; Marchewka, Avi

2015-02-01

Despite the high prevalence of singular potential in general, and rectangular potentials in particular, in applied scattering models, to date little is known about their short time effects. The reason is that singular potentials cause a mixture of complicated local as well as non-local effects. The object of this work is to derive a generic method to calculate analytically the short-time impact of any singular potential. In this paper it is shown that the scattering of a smooth wavefunction on a singular potential is totally equivalent, in the short-time regime, to the free propagation of a singular wavefunction. However, the latter problem was totally addressed analytically in Ref. [7]. Therefore, this equivalency can be utilized in solving analytically the short time dynamics of any smooth wavefunction at the presence of a singular potentials. In particular, with this method the short-time dynamics of any problem where a sharp boundaries potential (e.g., a rectangular barrier) is turned on instantaneously can easily be solved analytically.

Specific Non-Local Interactions Are Not Necessary for Recovering Native Protein Dynamics

PubMed Central

Dasgupta, Bhaskar; Kasahara, Kota; Kamiya, Narutoshi; Nakamura, Haruki; Kinjo, Akira R.

2014-01-01

The elastic network model (ENM) is a widely used method to study native protein dynamics by normal mode analysis (NMA). In ENM we need information about all pairwise distances, and the distance between contacting atoms is restrained to the native value. Therefore ENM requires O(N2) information to realize its dynamics for a protein consisting of N amino acid residues. To see if (or to what extent) such a large amount of specific structural information is required to realize native protein dynamics, here we introduce a novel model based on only O(N) restraints. This model, named the ‘contact number diffusion’ model (CND), includes specific distance restraints for only local (along the amino acid sequence) atom pairs, and semi-specific non-local restraints imposed on each atom, rather than atom pairs. The semi-specific non-local restraints are defined in terms of the non-local contact numbers of atoms. The CND model exhibits the dynamic characteristics comparable to ENM and more correlated with the explicit-solvent molecular dynamics simulation than ENM. Moreover, unrealistic surface fluctuations often observed in ENM were suppressed in CND. On the other hand, in some ligand-bound structures CND showed larger fluctuations of buried protein atoms interacting with the ligand compared to ENM. In addition, fluctuations from CND and ENM show comparable correlations with the experimental B-factor. Although there are some indications of the importance of some specific non-local interactions, the semi-specific non-local interactions are mostly sufficient for reproducing the native protein dynamics. PMID:24625758

VEDA: a web-based virtual environment for dynamic atomic force microscopy.

PubMed

Melcher, John; Hu, Shuiqing; Raman, Arvind

2008-06-01

We describe here the theory and applications of virtual environment dynamic atomic force microscopy (VEDA), a suite of state-of-the-art simulation tools deployed on nanoHUB (www.nanohub.org) for the accurate simulation of tip motion in dynamic atomic force microscopy (dAFM) over organic and inorganic samples. VEDA takes advantage of nanoHUB's cyberinfrastructure to run high-fidelity dAFM tip dynamics computations on local clusters and the teragrid. Consequently, these tools are freely accessible and the dAFM simulations are run using standard web-based browsers without requiring additional software. A wide range of issues in dAFM ranging from optimal probe choice, probe stability, and tip-sample interaction forces, power dissipation, to material property extraction and scanning dynamics over hetereogeneous samples can be addressed.

Invited Article: VEDA: A web-based virtual environment for dynamic atomic force microscopy

NASA Astrophysics Data System (ADS)

Melcher, John; Hu, Shuiqing; Raman, Arvind

2008-06-01

We describe here the theory and applications of virtual environment dynamic atomic force microscopy (VEDA), a suite of state-of-the-art simulation tools deployed on nanoHUB (www.nanohub.org) for the accurate simulation of tip motion in dynamic atomic force microscopy (dAFM) over organic and inorganic samples. VEDA takes advantage of nanoHUB's cyberinfrastructure to run high-fidelity dAFM tip dynamics computations on local clusters and the teragrid. Consequently, these tools are freely accessible and the dAFM simulations are run using standard web-based browsers without requiring additional software. A wide range of issues in dAFM ranging from optimal probe choice, probe stability, and tip-sample interaction forces, power dissipation, to material property extraction and scanning dynamics over hetereogeneous samples can be addressed.

Electron-phonon interaction within classical molecular dynamics

DOE PAGES

Tamm, A.; Samolyuk, G.; Correa, A. A.; ...

2016-07-14

Here, we present a model for nonadiabatic classical molecular dynamics simulations that captures with high accuracy the wave-vector q dependence of the phonon lifetimes, in agreement with quantum mechanics calculations. It is based on a local view of the e-ph interaction where individual atom dynamics couples to electrons via a damping term that is obtained as the low-velocity limit of the stopping power of a moving ion in a host. The model is parameter free, as its components are derived from ab initio-type calculations, is readily extended to the case of alloys, and is adequate for large-scale molecular dynamics computermore » simulations. We also show how this model removes some oversimplifications of the traditional ionic damped dynamics commonly used to describe situations beyond the Born-Oppenheimer approximation.« less

The contribution of local and transport processes to phytoplankton biomass variability over different timescales in the Upper James River, Virginia

NASA Astrophysics Data System (ADS)

Qin, Qubin; Shen, Jian

2017-09-01

Although both local processes (photosynthesis, respiration, grazing, and settling), and transport processes (advective transport and diffusive transport) significantly affect local phytoplankton dynamics, it is difficult to separate their contributions and to investigate the relative importance of each process to the local variability of phytoplankton biomass over different timescales. A method of using the transport rate is introduced to quantify the contribution of transport processes. By combining the time-varying transport rate and high-frequency observed chlorophyll a data, we can explicitly examine the impact of local and transport processes on phytoplankton biomass over a range of timescales from hourly to annually. For the Upper James River, results show that the relative importance of local and transport processes differs on different timescales. Local processes dominate phytoplankton variability on daily to weekly timescales, whereas the contribution of transport processes increases on seasonal to annual timescales and reaches equilibrium with local processes. With the use of the transport rate and high-frequency chlorophyll a data, a method similar to the open water oxygen method for metabolism is also presented to estimate phytoplankton primary production.

Capacity allocation mechanism based on differentiated QoS in 60 GHz radio-over-fiber local access network

NASA Astrophysics Data System (ADS)

Kou, Yanbin; Liu, Siming; Zhang, Weiheng; Shen, Guansheng; Tian, Huiping

2017-03-01

We present a dynamic capacity allocation mechanism based on the Quality of Service (QoS) for different mobile users (MU) in 60 GHz radio-over-fiber (RoF) local access networks. The proposed mechanism is capable for collecting the request information of MUs to build a full list of MU capacity demands and service types at the Central Office (CO). A hybrid algorithm is introduced to implement the capacity allocation which can satisfy the requirements of different MUs at different network traffic loads. Compared with the weight dynamic frames assignment (WDFA) scheme, the Hybrid scheme can keep high priority MUs in low delay and maintain the packet loss rate less than 1% simultaneously. At the same time, low priority MUs have a relatively better performance.

Covalency in transition-metal oxides within all-electron dynamical mean-field theory

NASA Astrophysics Data System (ADS)

Haule, Kristjan; Birol, Turan; Kotliar, Gabriel

2014-08-01

A combination of dynamical mean field theory and density functional theory, as implemented by Haule et al. [Phys. Rev. B 81, 195107 (2010), 10.1103/PhysRevB.81.195107], is applied to both the early and late transition metal oxides. For a fixed value of the local Coulomb repulsion, without fine tuning, we obtain the main features of these series, such as the metallic character of SrVO3 and the insulating gaps of LaVO3,LaTiO3, and La2CO4, which are in good agreement with experiment. This study highlights the importance of local physics and high energy hybridization in the screening of the Hubbard interaction and how different low energy behaviors can emerge from the unified treatment of the transition metal series.

Computational methods and traveling wave solutions for the fourth-order nonlinear Ablowitz-Kaup-Newell-Segur water wave dynamical equation via two methods and its applications

NASA Astrophysics Data System (ADS)

Ali, Asghar; Seadawy, Aly R.; Lu, Dianchen

2018-05-01

The aim of this article is to construct some new traveling wave solutions and investigate localized structures for fourth-order nonlinear Ablowitz-Kaup-Newell-Segur (AKNS) water wave dynamical equation. The simple equation method (SEM) and the modified simple equation method (MSEM) are applied in this paper to construct the analytical traveling wave solutions of AKNS equation. The different waves solutions are derived by assigning special values to the parameters. The obtained results have their importance in the field of physics and other areas of applied sciences. All the solutions are also graphically represented. The constructed results are often helpful for studying several new localized structures and the waves interaction in the high-dimensional models.

Single molecule tracking fluorescence microscopy in mitochondria reveals highly dynamic but confined movement of Tom40

NASA Astrophysics Data System (ADS)

Kuzmenko, Anton; Tankov, Stoyan; English, Brian P.; Tarassov, Ivan; Tenson, Tanel; Kamenski, Piotr; Elf, Johan; Hauryliuk, Vasili

2011-12-01

Tom40 is an integral protein of the mitochondrial outer membrane, which as the central component of the Translocase of the Outer Membrane (TOM) complex forms a channel for protein import. We characterize the diffusion properties of individual Tom40 molecules fused to the photoconvertable fluorescent protein Dendra2 with millisecond temporal resolution. By imaging individual Tom40 molecules in intact isolated yeast mitochondria using photoactivated localization microscopy with sub-diffraction limited spatial precision, we demonstrate that Tom40 movement in the outer mitochondrial membrane is highly dynamic but confined in nature, suggesting anchoring of the TOM complex as a whole.

Dynamical decoupling of local transverse random telegraph noise in a two-qubit gate

NASA Astrophysics Data System (ADS)

D'Arrigo, A.; Falci, G.; Paladino, E.

2015-10-01

Achieving high-fidelity universal two-qubit gates is a central requisite of any implementation of quantum information processing. The presence of spurious fluctuators of various physical origin represents a limiting factor for superconducting nanodevices. Operating qubits at optimal points, where the qubit-fluctuator interaction is transverse with respect to the single qubit Hamiltonian, considerably improved single qubit gates. Further enhancement has been achieved by dynamical decoupling (DD). In this article we investigate DD of transverse random telegraph noise acting locally on each of the qubits forming an entangling gate. Our analysis is based on the exact numerical solution of the stochastic Schrödinger equation. We evaluate the gate error under local periodic, Carr-Purcell and Uhrig DD sequences. We find that a threshold value of the number, n, of pulses exists above which the gate error decreases with a sequence-specific power-law dependence on n. Below threshold, DD may even increase the error with respect to the unconditioned evolution, a behaviour reminiscent of the anti-Zeno effect.

A Telescopic Binary Learning Machine for Training Neural Networks.

PubMed

Brunato, Mauro; Battiti, Roberto

2017-03-01

This paper proposes a new algorithm based on multiscale stochastic local search with binary representation for training neural networks [binary learning machine (BLM)]. We study the effects of neighborhood evaluation strategies, the effect of the number of bits per weight and that of the maximum weight range used for mapping binary strings to real values. Following this preliminary investigation, we propose a telescopic multiscale version of local search, where the number of bits is increased in an adaptive manner, leading to a faster search and to local minima of better quality. An analysis related to adapting the number of bits in a dynamic way is presented. The control on the number of bits, which happens in a natural manner in the proposed method, is effective to increase the generalization performance. The learning dynamics are discussed and validated on a highly nonlinear artificial problem and on real-world tasks in many application domains; BLM is finally applied to a problem requiring either feedforward or recurrent architectures for feedback control.

The impact of multiple information on coupled awareness-epidemic dynamics in multiplex networks

NASA Astrophysics Data System (ADS)

Pan, Yaohui; Yan, Zhijun

2018-02-01

Growing interest has emerged in the study of the interplay between awareness and epidemics in multiplex networks. However, previous studies on this issue usually assume that all aware individuals take the same level of precautions, ignoring individual heterogeneity. In this paper, we investigate the coupled awareness-epidemic dynamics in multiplex networks considering individual heterogeneity. Here, the precaution levels are heterogeneous and depend on three types of information: contact information and local and global prevalence information. The results show that contact-based precautions can decrease the epidemic prevalence and augment the epidemic threshold, but prevalence-based precautions, regardless of local or global information, can only decrease the epidemic prevalence. Moreover, unlike previous studies in single-layer networks, we do not find a greater impact of local prevalence information on the epidemic prevalence compared to global prevalence information. In addition, we find that the altruistic behaviors of infected individuals can effectively suppress epidemic spreading, especially when the level of contact-based precaution is high.

Dynamics at the Many-Body Localization Transition

NASA Astrophysics Data System (ADS)

Santos, Lea; Torres-Herrera, Jonathan

2015-05-01

Studies about localization in interacting systems have recently boomed. The interest in the subject is motivated by indications of the existence of a many-body localization (MBL) phase and by advances in experiments with optical lattices, which may serve as testbeds for corroborating theoretical predictions. A paradigmatic system for these analysis is the one-dimensional isolated Heisenberg model with random magnetic fields. We study the dynamics of this system for initial states prepared with high energies. Our focus is on the probability for finding the initial state later in time, the so-called survival probability. Two distinct behaviors are identified before the saturation of the relaxation process. At short times, the decay is very fast, as typical of clean systems. It subsequently slows down and develops a powerlaw behavior with an exponent related with the multifractal structure of the eigenstates. The curve of the powerlaw exponent versus the disorder strength exhibits an inflection point that is associated with the metal-insulator transition point. This work was supported by the NSF grant No. DMR-1147430.

HIP1 exhibits an early recruitment and a late stage function in the maturation of coated pits.

PubMed

Gottfried, Irit; Ehrlich, Marcelo; Ashery, Uri

2009-09-01

Huntingtin interacting protein 1 (HIP1) is an accessory protein of the clathrin-mediated endocytosis (CME) pathway, yet its precise role and the step at which it becomes involved are unclear. We employed live-cell imaging techniques to focus on the early steps of CME and characterize HIP1 dynamics. We show that HIP1 is highly colocalized with clathrin at the plasma membrane and shares similar dynamics with a subpopulation of clathrin assemblies. Employing transferrin receptor fused to pHluorin, we distinguished between open pits to which HIP1 localizes and newly internalized vesicles that are devoid of HIP1. Moreover, shRNA knockdown of clathrin compromised HIP1 membranal localization, unlike the reported behavior of Sla2p. HIP1 fragment, lacking its ANTH and Talin-like domains, inhibits internalization of transferrin, but retains colocalization with membranal clathrin assemblies. These data demonstrate HIP1's role in pits maturation and formation of the coated vesicle, and its strong dependence on clathrin for membranal localization.

Dynamics of flexible fibers and vesicles in Poiseuille flow at low Reynolds number.

PubMed

Farutin, Alexander; Piasecki, Tomasz; Słowicka, Agnieszka M; Misbah, Chaouqi; Wajnryb, Eligiusz; Ekiel-Jeżewska, Maria L

2016-09-21

The dynamics of flexible fibers and vesicles in unbounded planar Poiseuille flow at low Reynolds number is shown to exhibit similar basic features, when their equilibrium (moderate) aspect ratio is the same and vesicle viscosity contrast is relatively high. Tumbling, lateral migration, accumulation and shape evolution of these two types of flexible objects are analyzed numerically. The linear dependence of the accumulation position on relative bending rigidity, and other universal scalings are derived from the local shear flow approximation.

High-speed polarized light microscopy for in situ, dynamic measurement of birefringence properties

NASA Astrophysics Data System (ADS)

Wu, Xianyu; Pankow, Mark; Shadow Huang, Hsiao-Ying; Peters, Kara

2018-01-01

A high-speed, quantitative polarized light microscopy (QPLM) instrument has been developed to monitor the optical slow axis spatial realignment during controlled medium to high strain rate experiments at acquisition rates up to 10 kHz. This high-speed QPLM instrument is implemented within a modified drop tower and demonstrated using polycarbonate specimens. By utilizing a rotating quarter wave plate and a high-speed camera, the minimum acquisition time to generate an alignment map of a birefringent specimen is 6.1 ms. A sequential analysis method allows the QPLM instrument to generate QPLM data at the high-speed camera imaging frequency 10 kHz. The obtained QPLM data is processed using a vector correlation technique to detect anomalous optical axis realignment and retardation changes throughout the loading event. The detected anomalous optical axis realignment is shown to be associated with crack initiation, propagation, and specimen failure in a dynamically loaded polycarbonate specimen. The work provides a foundation for detecting damage in biological tissues through local collagen fiber realignment and fracture during dynamic loading.

Order reduction, identification and localization studies of dynamical systems

NASA Astrophysics Data System (ADS)

Ma, Xianghong

In this thesis methods are developed for performing order reduction, system identification and induction of nonlinear localization in complex mechanical dynamic systems. General techniques are proposed for constructing low-order models of linear and nonlinear mechanical systems; in addition, novel mechanical designs are considered for inducing nonlinear localization phenomena for the purpose of enhancing their dynamical performance. The thesis is in three major parts. In the first part, the transient dynamics of an impulsively loaded multi-bay truss is numerically computed by employing the Direct Global Matrix (DGM) approach. The approach is applicable to large-scale flexible structures with periodicity. Karhunen-Loeve (K-L) decomposition is used to discretize the dynamics of the truss and to create the low-order models of the truss. The leading order K-L modes are recovered by an experiment, which shows the feasibility of K-L based order reduction technique. In the second part of the thesis, nonlinear localization in dynamical systems is studied through two applications. In the seismic base isolation study, it is shown that the dynamics are sensitive to the presence of nonlinear elements and that passive motion confinement can be induced under proper design. In the coupled rod system, numerical simulation of the transient dynamics shows that a nonlinear backlash spring can induce either nonlinear localization or delocalization in the form of beat phenomena. K-L decomposition and poincare maps are utilized to study the nonlinear effects. The study shows that nonlinear localization can be induced in complex structures through backlash. In the third and final part of the thesis, a new technique based on Green!s function method is proposed to identify the dynamics of practical bolted joints. By modeling the difference between the dynamics of the bolted structure and the corresponding unbolted one, one constructs a nonparametric model for the joint dynamics. Two applications are given with a bolted beam and a truss joint in order to show the applicability of the technique.

Revealing Hidden Structural Order Controlling Both Fast and Slow Glassy Dynamics in Supercooled Liquids

NASA Astrophysics Data System (ADS)

Tong, Hua; Tanaka, Hajime

2018-01-01

The dynamics of a supercooled liquid near the glass transition is characterized by two-step relaxation, fast β and slow α relaxations. Because of the apparently disordered nature of glassy structures, there have been long debates over whether the origin of drastic slowing-down of the α relaxation accompanied by heterogeneous dynamics is thermodynamic or dynamic. Furthermore, it has been elusive whether there is any deep connection between fast β and slow α modes. To settle these issues, here we introduce a set of new structural order parameters characterizing sterically favored structures with high local packing capability, and then access structure-dynamics correlation by a novel nonlocal approach. We find that the particle mobility is under control of the static order parameter field. The fast β process is controlled by the instantaneous order parameter field locally, resulting in short-time particle-scale dynamics. Then the mobility field progressively develops with time t , following the initial order parameter field from disorder to more ordered regions. As is well known, the heterogeneity in the mobility field (dynamic heterogeneity) is maximized with a characteristic length ξ4, when t reaches the relaxation time τα. We discover that this mobility pattern can be predicted solely by a spatial coarse graining of the initial order parameter field at t =0 over a length ξ without any dynamical information. Furthermore, we find a relation ξ ˜ξ4, indicating that the static length ξ grows coherently with the dynamic one ξ4 upon cooling. This further suggests an intrinsic link between τα and ξ : the growth of the static length ξ is the origin of dynamical slowing-down. These we confirm for the first time in binary glass formers both in two and three spatial dimensions. Thus, a static structure has two intrinsic characteristic lengths, particle size and ξ , which control dynamics in local and nonlocal manners, resulting in the emergence of the two key relaxation modes, fast β and slow α processes, respectively. Because the two processes share a common structural origin, we can even predict a dynamic propensity pattern at long timescale from the fast β pattern. The presence of such intrinsic structure-dynamics correlation strongly indicates a thermodynamic nature of glass transition.

Living-Cell Microarrays

PubMed Central

Yarmush, Martin L.; King, Kevin R.

2011-01-01

Living cells are remarkably complex. To unravel this complexity, living-cell assays have been developed that allow delivery of experimental stimuli and measurement of the resulting cellular responses. High-throughput adaptations of these assays, known as living-cell microarrays, which are based on microtiter plates, high-density spotting, microfabrication, and microfluidics technologies, are being developed for two general applications: (a) to screen large-scale chemical and genomic libraries and (b) to systematically investigate the local cellular microenvironment. These emerging experimental platforms offer exciting opportunities to rapidly identify genetic determinants of disease, to discover modulators of cellular function, and to probe the complex and dynamic relationships between cells and their local environment. PMID:19413510

THREE-DIMENSIONAL COMPUTATIONAL FLUID DYNAMICS SIMULATIONS OF LOCAL PARTICLE DEPOSITION PATTERNS IN LUNG AIRWAYS

EPA Science Inventory

EPA has identified respirable particulate matter (PM) as a significant threat to human health, particularly in the elderly, in children, and in persons with respiratory disease. However, deposition of PM in the respiratory system is highly variable, depending upon particle chara...

The Dynamics of the Local Group in the Era of Precision Astrometry

NASA Astrophysics Data System (ADS)

Besla, Gurtina; Garavito-Camargo, Nicolas; Patel, Ekta

2018-06-01

Our understanding of the dynamics of our Local Group of galaxies has changed dramatically over the past few years owing to significant advancements in astrometry and our theoretical understanding of galaxy structure. New surveys now enable us to map the 3D structure of our Milky Way and the dynamics of tracers of its dark matter distribution, like globular clusters, satellite galaxies and streams, with unprecedented precision. Some results have met with controversy, challenging preconceived notions of the orbital dynamics of key components of the Local Group. I will provide an overview of this evolving picture of our Local Group and outline how we can test the cold dark matter paradigm in the era of Gaia, LSST and JWST.

Local Hotspots In The Gulf Of Maine: Spatial Overlap Between Dynamic Aggregations Of Primary Productivity And Fish Abundance

NASA Astrophysics Data System (ADS)

Ribera, M.

2016-02-01

Identification of biological hotspots may be a necessary step toward ecosystem-based management goals, as these often signal underlying processes that aggregate or stimulate resources in a particular location. However, previously used metrics to locate these hotspots are not easily adapted to local marine datasets, in part due to the high spatial and temporal variability of phytoplankton populations. While most fish species in temperate regions are well adapted to the seasonal variability of phytoplankton abundance, it is the variability beyond this predictable pattern (i.e. anomalies) that may heavily impact the abundance and spatial distribution of organisms higher up the food chain. The objective of this study was to identify local-scale biological hotspots in a region in the western side of the Gulf of Maine using remote sensing chlorophyll-a data (from MERIS sensor), and to study the spatial overlap between these hotspots and high concentrations of fish abundance (derived from VTR dataset). For this reason, we defined a new hotspot metric that identified as a hotspot any area that consistently exhibited high-magnitude anomalies through time, a sign of highly dynamic communities. We improved on previous indices by minimizing the effect that different means and variances across space may have on the results, a situation that often occurs when comparing coastal and offshore systems. Results show a significant spatial correlation between pelagic fish abundance and aggregations of primary productivity. Spatial correlations were also significant between benthic fish abundance and primary productivity hotspots, but only during spring months. We argue that this new hotspot index compliments existing global measures as it helps managers understand the dynamic characteristics of a complex marine system. It also provides a unique metric that is easily compared across space and between different trophic levels, which may facilitate future ecosystem-wide studies.

Local Hotspots In The Gulf Of Maine: Spatial Overlap Between Dynamic Aggregations Of Primary Productivity And Fish Abundance

NASA Astrophysics Data System (ADS)

Ribera, M.

2016-12-01

Identification of biological hotspots may be a necessary step toward ecosystem-based management goals, as these often signal underlying processes that aggregate or stimulate resources in a particular location. However, previously used metrics to locate these hotspots are not easily adapted to local marine datasets, in part due to the high spatial and temporal variability of phytoplankton populations. While most fish species in temperate regions are well adapted to the seasonal variability of phytoplankton abundance, it is the variability beyond this predictable pattern (i.e. anomalies) that may heavily impact the abundance and spatial distribution of organisms higher up the food chain. The objective of this study was to identify local-scale biological hotspots in a region in the western side of the Gulf of Maine using remote sensing chlorophyll-a data (from MERIS sensor), and to study the spatial overlap between these hotspots and high concentrations of fish abundance (derived from VTR dataset). For this reason, we defined a new hotspot metric that identified as a hotspot any area that consistently exhibited high-magnitude anomalies through time, a sign of highly dynamic communities. We improved on previous indices by minimizing the effect that different means and variances across space may have on the results, a situation that often occurs when comparing coastal and offshore systems. Results show a significant spatial correlation between pelagic fish abundance and aggregations of primary productivity. Spatial correlations were also significant between benthic fish abundance and primary productivity hotspots, but only during spring months. We argue that this new hotspot index compliments existing global measures as it helps managers understand the dynamic characteristics of a complex marine system. It also provides a unique metric that is easily compared across space and between different trophic levels, which may facilitate future ecosystem-wide studies.

Conserving the linear momentum in stochastic dynamics: Dissipative particle dynamics as a general strategy to achieve local thermostatization in molecular dynamics simulations.

PubMed

Passler, Peter P; Hofer, Thomas S

2017-02-15

Stochastic dynamics is a widely employed strategy to achieve local thermostatization in molecular dynamics simulation studies; however, it suffers from an inherent violation of momentum conservation. Although this short-coming has little impact on structural and short-time dynamic properties, it can be shown that dynamics in the long-time limit such as diffusion is strongly dependent on the respective thermostat setting. Application of the methodically similar dissipative particle dynamics (DPD) provides a simple, effective strategy to ensure the advantages of local, stochastic thermostatization while at the same time the linear momentum of the system remains conserved. In this work, the key parameters to employ the DPD thermostats in the framework of periodic boundary conditions are investigated, in particular the dependence of the system properties on the size of the DPD-region as well as the treatment of forces near the cutoff. Structural and dynamical data for light and heavy water as well as a Lennard-Jones fluid have been compared to simulations executed via stochastic dynamics as well as via use of the widely employed Nose-Hoover chain and Berendsen thermostats. It is demonstrated that a small size of the DPD region is sufficient to achieve local thermalization, while at the same time artifacts in the self-diffusion characteristic for stochastic dynamics are eliminated. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Early dynamic imaging in 68Ga- PSMA-11 PET/CT allows discrimination of urinary bladder activity and prostate cancer lesions.

PubMed

Uprimny, Christian; Kroiss, Alexander Stephan; Decristoforo, Clemens; Fritz, Josef; Warwitz, Boris; Scarpa, Lorenza; Roig, Llanos Geraldo; Kendler, Dorota; von Guggenberg, Elisabeth; Bektic, Jasmin; Horninger, Wolfgang; Virgolini, Irene Johanna

2017-05-01

PET/CT with 68 Ga-labelled prostate-specific membrane antigen (PSMA)-ligands has been proven to establish a promising imaging modality in the work-up of prostate cancer (PC) patients with biochemical relapse. Despite a high overall detection rate, the visualisation of local recurrence may be hampered by high physiologic tracer accumulation in the urinary bladder on whole body imaging, usually starting 60 min after injection. This study sought to verify whether early dynamic 68 Ga-PSMA-11 (HBED-CC)PET/CT can differentiate pathologic PC-related tracer uptake from physiologic tracer accumulation in the urinary bladder. Eighty consecutive PC patients referred to 68 Ga -PSMA-11 PET/CT were included in this retrospective analysis (biochemical relapse: n = 64; primary staging: n = 8; evaluation of therapy response/restaging: n = 8). In addition to whole-body PET/CT acquisition 60 min post injection early dynamic imaging of the pelvis in the first 8 min after tracer injection was performed. SUV max of pathologic lesions was calculated and time-activity curves were generated and compared to those of urinary bladder and areas of physiologic tracer uptake. A total of 55 lesions consistent with malignancy on 60 min whole body imaging exhibited also pathologic 68 Ga-PSMA-11 uptake during early dynamic imaging (prostatic bed/prostate gland: n = 27; lymph nodes: n = 12; bone: n = 16). All pathologic lesions showed tracer uptake within the first 3 min, whereas urinary bladder activity was absent within the first 3 min of dynamic imaging in all patients. Suv max was significantly higher in PC lesions in the first 6 min compared to urinary bladder accumulation (p < 0.001). In the subgroup of PC patients with biochemical relapse the detection rate of local recurrence could be increased from 20.3 to 29.7%. Early dynamic imaging in 68 Ga-PSMA-11 PET/CT reliably enables the differentiation of pathologic tracer uptake in PC lesions from physiologic bladder accumulation. Performance of early dynamic imaging in addition to whole body imaging 60 min after tracer injection might improve the detection rate of local recurrence in PC patients with biochemical relapse referred for 68 Ga-PSMA-11 PET/CT.

Erosion under climate and human pressures: An alpine lake sediment perspective

NASA Astrophysics Data System (ADS)

Arnaud, Fabien; Poulenard, Jérôme; Giguet-Covex, Charline; Wilhelm, Bruno; Révillon, Sidonie; Jenny, Jean-Philippe; Revel, Marie; Enters, Dirk; Bajard, Manon; Fouinat, Laurent; Doyen, Elise; Simonneau, Anaëlle; Pignol, Cécile; Chapron, Emmanuel; Vannière, Boris; Sabatier, Pierre

2016-11-01

We review the scientific efforts over the last decades to reconstruct erosion from continuous alpine lake sediment records. We focused both on methodological issues, showing the growing importance of non-destructive high resolution approaches (XRF core-scanner) as well as progresses in the understanding of processes leading to the creation of an "erosion signal" in lakes. We distinguish "continuous records" from "event-records". Both provide complementary information but need to be studied with different approaches. Continuous regionally-relevant records proved to be particularly pertinent to document regional erosion patterns throughout the Holocene, in particular applying the source to sink approach. Event-based approaches demonstrated and took advantage of the strong non-linearity of sediment transport in high altitude catchment areas. This led to flood frequency and intensity reconstructions, highlighting the influence of climate change upon flood dynamics in the mountain. The combination of different record types, both in terms of location (high vs. low elevation), sedimentology (high vs. low terrigenous contribution) and significance (local vs. regional) is one of the main outputs of this paper. It allows the establishment of comprehensive histories of NW French Alps erosion, but also and consequently, soil dynamics and hydrological patterns throughout the Holocene. We also discuss the influence of glacier dynamics, one of the major agents of erosion in the Alps. A major feature is the growing human influence upon erosion at a local scale since at least the middle of the Bronze Age (3500 cal. BP). However and according to the regional record from Lake Bourget, only few periods of rising erosion at local scales generated a regional record that can be discriminated from wetter climatic periods. Among them, the period between 200 BCE and 400 AD appeared to be marked by a generalised rise in human-triggered erosion at local scales in the northern French Alps. This review highlights the importance of modern high-resolution and interdisciplinary studies of lake sediments, in order to better understand the complex relationships between humans, climate and the Earth system in general. We strongly argue that regional integration of data is now required to move a step further. Such an integration is easier with cost- and time-effective methods as well as after a better definition of approaches and their limits. This should lead to a stronger collaboration between paleo-data producers and modellers in the near future.

Studying plastic shear localization in aluminum alloys under dynamic loading

NASA Astrophysics Data System (ADS)

Bilalov, D. A.; Sokovikov, M. A.; Chudinov, V. V.; Oborin, V. A.; Bayandin, Yu. V.; Terekhina, A. I.; Naimark, O. B.

2016-12-01

An experimental and theoretical study of plastic shear localization mechanisms observed under dynamic deformation using the shear-compression scheme on a Hopkinson-Kolsky bar has been carried out using specimens of AMg6 alloy. The mechanisms of plastic shear instability are associated with collective effects in the microshear ensemble in spatially localized areas. The lateral surface of the specimens was photographed in the real-time mode using a CEDIP Silver 450M high-speed infrared camera. The temperature distribution obtained at different times allowed us to trace the evolution of the localization of the plastic strain. Based on the equations that describe the effect of nonequilibrium transitions on the mechanisms of structural relaxation and plastic flow, numerical simulation of plastic shear localization has been performed. A numerical experiment relevant to the specimen-loading scheme was carried out using a system of constitutive equations that reflect the part of the structural relaxation mechanisms caused by the collective behavior of microshears with the autowave modes of the evolution of the localized plastic flow. Upon completion of the experiment, the specimens were subjected to microstructure analysis using a New View-5010 optical microscope-interferometer. After the dynamic deformation, the constancy of the Hurst exponent, which reflects the relationship between the behavior of defects and roughness induced by the defects on the surfaces of the specimens is observed in a wider range of spatial scales. These investigations revealed the distinctive features in the localization of the deformation followed by destruction to the script of the adiabatic shear. These features may be caused by the collective multiscale behavior of defects, which leads to a sharp decrease in the stress-relaxation time and, consequently, a localized plastic flow and generation of fracture nuclei in the form of adiabatic shear. Infrared scanning of the localization zone of the plastic strain in situ and the subsequent study of the defect structure corroborated the hypothesis about the decisive role of non-equilibrium transitions in defect ensembles during the evolution of a localized plastic flow.

Patterns of local segregation: Do they matter for neighborhood crime?

PubMed

Krivo, Lauren J; Byron, Reginald A; Calder, Catherine A; Peterson, Ruth D; Browning, Christopher R; Kwan, Mei-Po; Lee, Jae Yong

2015-11-01

In this paper, we extend recent research on the spatial measurement of segregation and the spatial dynamics of urban crime by conceptualizing, measuring, and describing local segregation by race-ethnicity and economic status, and examining the linkages of these conditions with levels of neighborhood violent and property crime. The analyses are based on all 8895 census tracts within a sample of 86 large U.S. cities. We fit multilevel models of crime that incorporate measures of local segregation. The results reveal that, net of city-level and neighborhood characteristics, White-Black local segregation is associated with lower violent and property crime. In contrast, local segregation of low income from high income households is connected with higher crime, particularly neighborhood violence. Copyright © 2015 Elsevier Inc. All rights reserved.

Interface proliferation and the growth of labyrinths in a reaction-diffusion system

NASA Astrophysics Data System (ADS)

Goldstein, Raymond E.; Muraki, David J.; Petrich, Dean M.

1996-04-01

In the bistable regime of the FitzHugh-Nagumo model of reaction-diffusion systems, spatially homogeneous patterns may be nonlinearly unstable to the formation of compact "localized states." The formation of space-filling patterns from instabilities of such structures is studied in the context of a nonlocal contour dynamics model for the evolution of boundaries between high and low concentrations of the activator. An earlier heuristic derivation [D. M. Petrich and R. E. Goldstein,

Odour-impact assessment around a landfill site from weather-type classification, complaint inventory and numerical simulation.

PubMed

Chemel, C; Riesenmey, C; Batton-Hubert, M; Vaillant, H

2012-01-01

Gases released from landfill sites into the atmosphere have the potential to cause olfactory nuisances within the surrounding communities. Landfill sites are often located over complex topography for convenience mainly related to waste disposal and environmental masking. Dispersion of odours is strongly conditioned by local atmospheric dynamics. Assessment of odour impacts needs to take into account the variability of local atmospheric dynamics. In this study, we discuss a method to assess odour impacts around a landfill site located over complex terrain in order to provide information to be used subsequently to identify management strategies to reduce olfactory nuisances in the residential neighbourhoods. A weather-type classification is defined in order to identify meteorological conditions under which olfactory nuisances are to be expected. A non-steady state Gaussian model and a full-physics meteorological model are used to predict olfactory nuisances, for both the winter and summer scenarios that lead to the majority of complaints in neighbourhoods surrounding the landfill site. Simulating representative scenarios rather than full years make a high resolution simulation of local atmospheric dynamics in space and time possible. Results underline the key role of local atmospheric dynamics in driving the dispersion of odours. The odour concentration simulated by the full-physics meteorological model is combined with the density of the population in order to calculate an average population exposure for the two scenarios. Results of this study are expected to provide helpful information to develop technical solutions for an effective management of landfill operations, which would reduce odour impacts within the surrounding communities. Copyright © 2011 Elsevier Ltd. All rights reserved.

Dynamic modeling for rigid rotor bearing systems with a localized defect considering additional deformations at the sharp edges

NASA Astrophysics Data System (ADS)

Liu, Jing; Shao, Yimin

2017-06-01

Rotor bearing systems (RBSs) play a very valuable role for wind turbine gearboxes, aero-engines, high speed spindles, and other rotational machinery. An in-depth understanding of vibrations of the RBSs is very useful for condition monitoring and diagnosis applications of these machines. A new twelve-degree-of-freedom dynamic model for rigid RBSs with a localized defect (LOD) is proposed. This model can formulate the housing support stiffness, interfacial frictional moments including load dependent and load independent components, time-varying displacement excitation caused by a LOD, additional deformations at the sharp edges of the LOD, and lubricating oil film. The time-varying displacement model is determined by a half-sine function. A new method for calculating the additional deformations at the sharp edges of the LOD is analytical derived based on an elastic quarter-space method presented in the literature. The proposed dynamic model is utilized to analyze the influences of the housing support stiffness and LOD sizes on the vibration characteristics of the rigid RBS, which cannot be predicted by the previous dynamic models in the literature. The results show that the presented method can give a new dynamic modeling method for vibration formulation for a rigid RBS with and without the LOD on the races.

TACC3 is a microtubule plus end–tracking protein that promotes axon elongation and also regulates microtubule plus end dynamics in multiple embryonic cell types

PubMed Central

Nwagbara, Belinda U.; Faris, Anna E.; Bearce, Elizabeth A.; Erdogan, Burcu; Ebbert, Patrick T.; Evans, Matthew F.; Rutherford, Erin L.; Enzenbacher, Tiffany B.; Lowery, Laura Anne

2014-01-01

Microtubule plus end dynamics are regulated by a conserved family of proteins called plus end–tracking proteins (+TIPs). It is unclear how various +TIPs interact with each other and with plus ends to control microtubule behavior. The centrosome-associated protein TACC3, a member of the transforming acidic coiled-coil (TACC) domain family, has been implicated in regulating several aspects of microtubule dynamics. However, TACC3 has not been shown to function as a +TIP in vertebrates. Here we show that TACC3 promotes axon outgrowth and regulates microtubule dynamics by increasing microtubule plus end velocities in vivo. We also demonstrate that TACC3 acts as a +TIP in multiple embryonic cell types and that this requires the conserved C-terminal TACC domain. Using high-resolution live-imaging data on tagged +TIPs, we show that TACC3 localizes to the extreme microtubule plus end, where it lies distal to the microtubule polymerization marker EB1 and directly overlaps with the microtubule polymerase XMAP215. TACC3 also plays a role in regulating XMAP215 stability and localizing XMAP215 to microtubule plus ends. Taken together, our results implicate TACC3 as a +TIP that functions with XMAP215 to regulate microtubule plus end dynamics. PMID:25187649

Charge Separation and Exciton Dynamics at Polymer/ZnO Interface from First-Principles Simulations.

PubMed

Wu, Guangfen; Li, Zi; Zhang, Xu; Lu, Gang

2014-08-07

Charge separation and exciton dynamics play a crucial role in determining the performance of excitonic photovoltaics. Using time-dependent density functional theory with a range-separated exchange-correlation functional as well as nonadiabatic ab initio molecular dynamics, we have studied the formation and dynamics of charge-transfer (CT) excitons at polymer/ZnO interface. The interfacial atomic structure, exciton density of states and conversions between exciton species are examined from first-principles. The exciton dynamics exhibits both adiabatic and nonadiabatic characters. While the adiabatic transitions are facilitated by C═C vibrations along the polymer (P3HT) backbone, the nonadiabatic transitions are realized by exciton hopping between the excited states. We find that the localized ZnO surface states lead to localized low-energy CT states and poor charge separation. In contrast, the surface states of crystalline C60 are indistinguishable from the bulk states, resulting in delocalized CT states and efficient charge separation in polymer/fullerene (P3HT/PCBM) heterojunctions. The hot CT states are found to cool down in an ultrafast time scale and may not play a major role in charge separation of P3HT/ZnO. Finally we suggest that the dimensions of nanostructured acceptors can be tuned to obtain both efficient charge separation and high open circuit voltages.

FALCON: fast and unbiased reconstruction of high-density super-resolution microscopy data

NASA Astrophysics Data System (ADS)

Min, Junhong; Vonesch, Cédric; Kirshner, Hagai; Carlini, Lina; Olivier, Nicolas; Holden, Seamus; Manley, Suliana; Ye, Jong Chul; Unser, Michael

2014-04-01

Super resolution microscopy such as STORM and (F)PALM is now a well known method for biological studies at the nanometer scale. However, conventional imaging schemes based on sparse activation of photo-switchable fluorescent probes have inherently slow temporal resolution which is a serious limitation when investigating live-cell dynamics. Here, we present an algorithm for high-density super-resolution microscopy which combines a sparsity-promoting formulation with a Taylor series approximation of the PSF. Our algorithm is designed to provide unbiased localization on continuous space and high recall rates for high-density imaging, and to have orders-of-magnitude shorter run times compared to previous high-density algorithms. We validated our algorithm on both simulated and experimental data, and demonstrated live-cell imaging with temporal resolution of 2.5 seconds by recovering fast ER dynamics.

FALCON: fast and unbiased reconstruction of high-density super-resolution microscopy data

PubMed Central

Min, Junhong; Vonesch, Cédric; Kirshner, Hagai; Carlini, Lina; Olivier, Nicolas; Holden, Seamus; Manley, Suliana; Ye, Jong Chul; Unser, Michael

2014-01-01

Super resolution microscopy such as STORM and (F)PALM is now a well known method for biological studies at the nanometer scale. However, conventional imaging schemes based on sparse activation of photo-switchable fluorescent probes have inherently slow temporal resolution which is a serious limitation when investigating live-cell dynamics. Here, we present an algorithm for high-density super-resolution microscopy which combines a sparsity-promoting formulation with a Taylor series approximation of the PSF. Our algorithm is designed to provide unbiased localization on continuous space and high recall rates for high-density imaging, and to have orders-of-magnitude shorter run times compared to previous high-density algorithms. We validated our algorithm on both simulated and experimental data, and demonstrated live-cell imaging with temporal resolution of 2.5 seconds by recovering fast ER dynamics. PMID:24694686

Solution to the SLAM problem in low dynamic environments using a pose graph and an RGB-D sensor.

PubMed

Lee, Donghwa; Myung, Hyun

2014-07-11

In this study, we propose a solution to the simultaneous localization and mapping (SLAM) problem in low dynamic environments by using a pose graph and an RGB-D (red-green-blue depth) sensor. The low dynamic environments refer to situations in which the positions of objects change over long intervals. Therefore, in the low dynamic environments, robots have difficulty recognizing the repositioning of objects unlike in highly dynamic environments in which relatively fast-moving objects can be detected using a variety of moving object detection algorithms. The changes in the environments then cause groups of false loop closing when the same moved objects are observed for a while, which means that conventional SLAM algorithms produce incorrect results. To address this problem, we propose a novel SLAM method that handles low dynamic environments. The proposed method uses a pose graph structure and an RGB-D sensor. First, to prune the falsely grouped constraints efficiently, nodes of the graph, that represent robot poses, are grouped according to the grouping rules with noise covariances. Next, false constraints of the pose graph are pruned according to an error metric based on the grouped nodes. The pose graph structure is reoptimized after eliminating the false information, and the corrected localization and mapping results are obtained. The performance of the method was validated in real experiments using a mobile robot system.

Local Descriptors of Dynamic and Nondynamic Correlation.

PubMed

Ramos-Cordoba, Eloy; Matito, Eduard

2017-06-13

Quantitatively accurate electronic structure calculations rely on the proper description of electron correlation. A judicious choice of the approximate quantum chemistry method depends upon the importance of dynamic and nondynamic correlation, which is usually assesed by scalar measures. Existing measures of electron correlation do not consider separately the regions of the Cartesian space where dynamic or nondynamic correlation are most important. We introduce real-space descriptors of dynamic and nondynamic electron correlation that admit orbital decomposition. Integration of the local descriptors yields global numbers that can be used to quantify dynamic and nondynamic correlation. Illustrative examples over different chemical systems with varying electron correlation regimes are used to demonstrate the capabilities of the local descriptors. Since the expressions only require orbitals and occupation numbers, they can be readily applied in the context of local correlation methods, hybrid methods, density matrix functional theory, and fractional-occupancy density functional theory.

Some special solutions to the Hyperbolic NLS equation

NASA Astrophysics Data System (ADS)

Vuillon, Laurent; Dutykh, Denys; Fedele, Francesco

2018-04-01

The Hyperbolic Nonlinear SCHRöDINGER equation (HypNLS) arises as a model for the dynamics of three-dimensional narrow-band deep water gravity waves. In this study, the symmetries and conservation laws of this equation are computed. The PETVIASHVILI method is then exploited to numerically compute bi-periodic time-harmonic solutions of the HypNLS equation. In physical space they represent non-localized standing waves. Non-trivial spatial patterns are revealed and an attempt is made to describe them using symbolic dynamics and the language of substitutions. Finally, the dynamics of a slightly perturbed standing wave is numerically investigated by means a highly accurate FOURIER solver.

Dynamic sound localization in cats

PubMed Central

Ruhland, Janet L.; Jones, Amy E.

2015-01-01

Sound localization in cats and humans relies on head-centered acoustic cues. Studies have shown that humans are able to localize sounds during rapid head movements that are directed toward the target or other objects of interest. We studied whether cats are able to utilize similar dynamic acoustic cues to localize acoustic targets delivered during rapid eye-head gaze shifts. We trained cats with visual-auditory two-step tasks in which we presented a brief sound burst during saccadic eye-head gaze shifts toward a prior visual target. No consistent or significant differences in accuracy or precision were found between this dynamic task (2-step saccade) and the comparable static task (single saccade when the head is stable) in either horizontal or vertical direction. Cats appear to be able to process dynamic auditory cues and execute complex motor adjustments to accurately localize auditory targets during rapid eye-head gaze shifts. PMID:26063772

Studying dynamic processes in liquids by TEM/STEM/DTEM

NASA Astrophysics Data System (ADS)

Abellan, Patricia; Evans, James; Woehl, Taylor; Jungjohann, Katherine; Parent, Lucas; Arslan, Ilke; Ristenpart, William; Browning, Nigel; Mater. Sci. Group Team; Microsc. Group Team; Catal. Sci. Group Collaboration; Ristenpart Res. Group Collaboration

2013-03-01

In order to study dynamic phenomena such as corrosion or catalysis, extreme environmental conditions must be reproduced around the specimen - these include high-temperatures, high-pressures, specific oxidizing/reducing atmospheres or a liquid environment. The use of environmental stages specifically designed to fit in any transmission electron microscope (TEM) allows us to apply the distinct capabilities of each instrument to study dynamic processes. Localized gas/fluid conditions are created around the sample and separated from the high vacuum inside the microscope using hermetically sealed windowed-cells. Advanced capabilities of these techniques include spatial resolutions of ~1 Angstrom or better in aberration corrected instruments or temporal resolutions in the microsecond-nanosecond range in a dynamic TEM (DTEM). Here, unique qualities of the DTEM that benefit the in-situ experiments with gas/fluid environmental cells will be discussed. We also present our results with a liquid stage allowing atomic resolution imaging of nanomaterials in a colloidal suspension, core EEL spectra acquisition, continuous flow, controlled growth of nanocrystals and systematic calibration of the effect of the electron dose on silver nuclei formation.

Backwards compatible high dynamic range video compression

NASA Astrophysics Data System (ADS)

Dolzhenko, Vladimir; Chesnokov, Vyacheslav; Edirisinghe, Eran A.

2014-02-01

This paper presents a two layer CODEC architecture for high dynamic range video compression. The base layer contains the tone mapped video stream encoded with 8 bits per component which can be decoded using conventional equipment. The base layer content is optimized for rendering on low dynamic range displays. The enhancement layer contains the image difference, in perceptually uniform color space, between the result of inverse tone mapped base layer content and the original video stream. Prediction of the high dynamic range content reduces the redundancy in the transmitted data while still preserves highlights and out-of-gamut colors. Perceptually uniform colorspace enables using standard ratedistortion optimization algorithms. We present techniques for efficient implementation and encoding of non-uniform tone mapping operators with low overhead in terms of bitstream size and number of operations. The transform representation is based on human vision system model and suitable for global and local tone mapping operators. The compression techniques include predicting the transform parameters from previously decoded frames and from already decoded data for current frame. Different video compression techniques are compared: backwards compatible and non-backwards compatible using AVC and HEVC codecs.

Coupling of protein localization and cell movements by a dynamically localized response regulator in Myxococcus xanthus

PubMed Central

Leonardy, Simone; Freymark, Gerald; Hebener, Sabrina; Ellehauge, Eva; Søgaard-Andersen, Lotte

2007-01-01

Myxococcus xanthus cells harbor two motility machineries, type IV pili (Tfp) and the A-engine. During reversals, the two machineries switch polarity synchronously. We present a mechanism that synchronizes this polarity switching. We identify the required for motility response regulator (RomR) as essential for A-motility. RomR localizes in a bipolar, asymmetric pattern with a large cluster at the lagging cell pole. The large RomR cluster relocates to the new lagging pole in parallel with cell reversals. Dynamic RomR localization is essential for cell reversals, suggesting that RomR relocalization induces the polarity switching of the A-engine. The analysis of RomR mutants shows that the output domain targets RomR to the poles and the receiver domain is essential for dynamic localization. The small GTPase MglA establishes correct RomR polarity, and the Frz two-component system regulates dynamic RomR localization. FrzS localizes with Tfp at the leading pole and relocates in an Frz-dependent manner to the opposite pole during reversals; FrzS and RomR localize and oscillate independently. The Frz system synchronizes these oscillations and thus the synchronous polarity switching of the motility machineries. PMID:17932488

A Digital Map From External Forcing to the Final Surface Warming Pattern and its Seasonal Cycle

NASA Astrophysics Data System (ADS)

Cai, M.

2015-12-01

Historically, only the thermodynamic processes (e.g., water vapor, cloud, surface albedo, and atmospheric lapse rate) that directly influence the top of the atmosphere (TOA) radiative energy flux balance are considered in climate feedback analysis. One of my recent research areas is to develop a new framework for climate feedback analysis that explicitly takes into consideration not only the thermodynamic processes that the directly influence the TOA radiative energy flux balance but also the local dynamical (e.g., evaporation, surface sensible heat flux, vertical convections etc) and non-local dynamical (large-scale horizontal energy transport) processes in aiming to explain the warming asymmetry between high and low latitudes, between ocean and land, and between the surface and atmosphere. In the last 5-6 years, we have developed a coupled atmosphere-surface climate feedback-response analysis method (CFRAM) as a new framework for estimating climate feedback and sensitivity in coupled general circulation models with a full physical parameterization package. In the CFRAM, the isolation of partial temperature changes due to an external forcing alone or an individual feedback is achieved by solving the linearized infrared radiation transfer model subject to individual energy flux perturbations (external or due to feedbacks). The partial temperature changes are addable and their sum is equal to the (total) temperature change (in the linear sense). The CFRAM is used to isolate the partial temperature changes due to the external forcing, due to water vapor feedback, clouds, surface albedo, local vertical convection, and non-local atmospheric dynamical feedbacks, as well as oceanic heat storage. It has been shown that seasonal variations in the cloud feedback, surface albedo feedback, and ocean heat storage/dynamics feedback, directly caused by the strong annual cycle of insolation, contribute primarily to the large seasonal variation of polar warming. Furthermore, the CO2 forcing, and water vapor and atmospheric dynamics feedbacks add to the maximum polar warming in fall/winter.

Local orientational mobility in regular hyperbranched polymers.

PubMed

Dolgushev, Maxim; Markelov, Denis A; Fürstenberg, Florian; Guérin, Thomas

2016-07-01

We study the dynamics of local bond orientation in regular hyperbranched polymers modeled by Vicsek fractals. The local dynamics is investigated through the temporal autocorrelation functions of single bonds and the corresponding relaxation forms of the complex dielectric susceptibility. We show that the dynamic behavior of single segments depends on their remoteness from the periphery rather than on the size of the whole macromolecule. Remarkably, the dynamics of the core segments (which are most remote from the periphery) shows a scaling behavior that differs from the dynamics obtained after structural average. We analyze the most relevant processes of single segment motion and provide an analytic approximation for the corresponding relaxation times. Furthermore, we describe an iterative method to calculate the orientational dynamics in the case of very large macromolecular sizes.

Study of plastic strain localization mechanisms caused by nonequilibrium transitions in mesodefect ensembles under high-speed loading

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sokovikov, Mikhail, E-mail: sokovikov@icmm.ru; Chudinov, Vasiliy; Bilalov, Dmitry

2015-10-27

The behavior of specimens dynamically loaded during split Hopkinson (Kolsky) bar tests in a regime close to simple shear conditions was studied. The lateral surface of the specimens was investigated in-situ using a high-speed infrared camera CEDIP Silver 450M. The temperature field distribution obtained at different time allowed one to trace the evolution of plastic strain localization. The process of target perforation involving plug formation and ejection was examined using a high-speed infrared camera and a VISAR velocity measurement system. The microstructure of tested specimens was analyzed using an optical interferometer-profiler and a scanning electron microscope. The development of plasticmore » shear instability regions has been simulated numerically.« less

Dynamic two-photon imaging of the immune response to Toxoplasma gondii infection.

PubMed

Luu, L; Coombes, J L

2015-03-01

Toxoplasma gondii is a highly successful parasite that can manipulate host immune responses to optimize its persistence and spread. As a result, a highly complex relationship exists between T. gondii and the immune system of the host. Advances in imaging techniques, and in particular, the application of two-photon microscopy to mouse infection models, have made it possible to directly visualize interactions between parasites and the host immune system as they occur in living tissues. Here, we will discuss how dynamic imaging techniques have provided unexpected new insight into (i) how immune responses are dynamically regulated by cells and structures in the local tissue environment, (ii) how protective responses to T. gondii are generated and (iii) how the parasite exploits the immune system for its own benefit. © 2014 John Wiley & Sons Ltd.

A comparative analysis of dynamic grids vs. virtual grids using the A3pviGrid framework.

PubMed

Shankaranarayanan, Avinas; Amaldas, Christine

2010-11-01

With the proliferation of Quad/Multi-core micro-processors in mainstream platforms such as desktops and workstations; a large number of unused CPU cycles can be utilized for running virtual machines (VMs) as dynamic nodes in distributed environments. Grid services and its service oriented business broker now termed cloud computing could deploy image based virtualization platforms enabling agent based resource management and dynamic fault management. In this paper we present an efficient way of utilizing heterogeneous virtual machines on idle desktops as an environment for consumption of high performance grid services. Spurious and exponential increases in the size of the datasets are constant concerns in medical and pharmaceutical industries due to the constant discovery and publication of large sequence databases. Traditional algorithms are not modeled at handing large data sizes under sudden and dynamic changes in the execution environment as previously discussed. This research was undertaken to compare our previous results with running the same test dataset with that of a virtual Grid platform using virtual machines (Virtualization). The implemented architecture, A3pviGrid utilizes game theoretic optimization and agent based team formation (Coalition) algorithms to improve upon scalability with respect to team formation. Due to the dynamic nature of distributed systems (as discussed in our previous work) all interactions were made local within a team transparently. This paper is a proof of concept of an experimental mini-Grid test-bed compared to running the platform on local virtual machines on a local test cluster. This was done to give every agent its own execution platform enabling anonymity and better control of the dynamic environmental parameters. We also analyze performance and scalability of Blast in a multiple virtual node setup and present our findings. This paper is an extension of our previous research on improving the BLAST application framework using dynamic Grids on virtualization platforms such as the virtual box.

Implementation of Dynamic Extensible Adaptive Locally Exchangeable Measures (IDEALEM) v 0.1

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sim, Alex; Lee, Dongeun; Wu, K. John

2016-03-04

Handling large streaming data is essential for various applications such as network traffic analysis, social networks, energy cost trends, and environment modeling. However, it is in general intractable to store, compute, search, and retrieve large streaming data. This software addresses a fundamental issue, which is to reduce the size of large streaming data and still obtain accurate statistical analysis. As an example, when a high-speed network such as 100 Gbps network is monitored, the collected measurement data rapidly grows so that polynomial time algorithms (e.g., Gaussian processes) become intractable. One possible solution to reduce the storage of vast amounts ofmore » measured data is to store a random sample, such as one out of 1000 network packets. However, such static sampling methods (linear sampling) have drawbacks: (1) it is not scalable for high-rate streaming data, and (2) there is no guarantee of reflecting the underlying distribution. In this software, we implemented a dynamic sampling algorithm, based on the recent technology from the relational dynamic bayesian online locally exchangeable measures, that reduces the storage of data records in a large scale, and still provides accurate analysis of large streaming data. The software can be used for both online and offline data records.« less

Simulation of Space Charge Dynamic in Polyethylene Under DC Continuous Electrical Stress

NASA Astrophysics Data System (ADS)

Boukhari, Hamed; Rogti, Fatiha

2016-10-01

The space charge dynamic plays a very important role in the aging and breakdown of polymeric insulation materials under high voltage. This is due to the intensification of the local electric field and the attendant chemical-mechanical effects in the vicinity around the trapped charge. In this paper, we have investigated the space charge dynamic in low-density polyethylene under high direct-current voltage, which is evaluated by experimental conditions. The evaluation is on the basis of simulation using a bipolar charge transport model consisting of charge injection, transports, trapping, detrapping, and recombination phenomena. The theoretical formulation of the physical problem is based on the Poisson, the continuity, and the transport equations. Numerical results provide temporal and local distributions of the electric field, the space charge density for the different kinds of charges (net charge density, mobile and trapped of electron density, mobile hole density), conduction and displacement current densities, and the external current. The result shows the appearance of the negative packet-like space charge with a large amount of the bulk under the dc electric field of 100 kV/mm, and the induced distortion of the electric field is largely near to the anode, about 39% higher than the initial electric field applied.

Validating simple dynamical simulations of the unitary Fermi gas

NASA Astrophysics Data System (ADS)

Forbes, Michael McNeil; Sharma, Rishi

2014-10-01

We present a comparison between simulated dynamics of the unitary fermion gas using the superfluid local density approximation (SLDA) and a simplified bosonic model, the extended Thomas-Fermi (ETF) with a unitary equation of state. Small-amplitude fluctuations have similar dynamics in both theories for frequencies far below the pair-breaking threshold and wave vectors much smaller than the Fermi momentum. The low-frequency linear responses in both match well for surprisingly large wave vectors, even up to the Fermi momentum. For nonlinear dynamics such as vortex generation, the ETF provides a semiquantitative description of SLDA dynamics as long as the fluctuations do not have significant power near the pair-breaking threshold; otherwise the dynamics of the ETF cannot be trusted. Nonlinearities in the ETF tend to generate high-frequency fluctuations, and with no normal component to remove this energy from the superfluid, features such as vortex lattices cannot relax and crystallize as they do in the SLDA.

Automatic network coupling analysis for dynamical systems based on detailed kinetic models.

PubMed

Lebiedz, Dirk; Kammerer, Julia; Brandt-Pollmann, Ulrich

2005-10-01

We introduce a numerical complexity reduction method for the automatic identification and analysis of dynamic network decompositions in (bio)chemical kinetics based on error-controlled computation of a minimal model dimension represented by the number of (locally) active dynamical modes. Our algorithm exploits a generalized sensitivity analysis along state trajectories and subsequent singular value decomposition of sensitivity matrices for the identification of these dominant dynamical modes. It allows for a dynamic coupling analysis of (bio)chemical species in kinetic models that can be exploited for the piecewise computation of a minimal model on small time intervals and offers valuable functional insight into highly nonlinear reaction mechanisms and network dynamics. We present results for the identification of network decompositions in a simple oscillatory chemical reaction, time scale separation based model reduction in a Michaelis-Menten enzyme system and network decomposition of a detailed model for the oscillatory peroxidase-oxidase enzyme system.

Remote Visualization and Remote Collaboration On Computational Fluid Dynamics

NASA Technical Reports Server (NTRS)

Watson, Val; Lasinski, T. A. (Technical Monitor)

1995-01-01

A new technology has been developed for remote visualization that provides remote, 3D, high resolution, dynamic, interactive viewing of scientific data (such as fluid dynamics simulations or measurements). Based on this technology, some World Wide Web sites on the Internet are providing fluid dynamics data for educational or testing purposes. This technology is also being used for remote collaboration in joint university, industry, and NASA projects in computational fluid dynamics and wind tunnel testing. Previously, remote visualization of dynamic data was done using video format (transmitting pixel information) such as video conferencing or MPEG movies on the Internet. The concept for this new technology is to send the raw data (e.g., grids, vectors, and scalars) along with viewing scripts over the Internet and have the pixels generated by a visualization tool running on the viewer's local workstation. The visualization tool that is currently used is FAST (Flow Analysis Software Toolkit).

Why Research-Informed Teaching in Engineering Education? A Review of the Evidence

ERIC Educational Resources Information Center

Bubou, Gordon Monday; Offor, Ibebietei Temple; Bappa, Abubakar Saddiq

2017-01-01

Challenges of today's engineering education (EE) are emergent, necessitating calls for its reformation to empower future engineers function optimally as innovative leaders, in both local and international contexts. These challenges: keeping pace with technological dynamism; high attrition; and most importantly, quality teaching/learning require…

Bidirectional Signaling of Mammary Epithelium and Stroma: Implications for Breast Cancer—Preventive Actions of Dietary Factors

USDA-ARS?s Scientific Manuscript database

The mammary gland is composed of two major cellular compartments: a highly dynamic epithelium that undergoes cycles of proliferation, differentiation, and apoptosis in response to local and endocrine signals and the underlying stroma comprised of fibroblasts, endothelial cells, and adipocytes that c...

Development and application of a local linearization algorithm for the integration of quaternion rate equations in real-time flight simulation problems

NASA Technical Reports Server (NTRS)

Barker, L. E., Jr.; Bowles, R. L.; Williams, L. H.

1973-01-01

High angular rates encountered in real-time flight simulation problems may require a more stable and accurate integration method than the classical methods normally used. A study was made to develop a general local linearization procedure of integrating dynamic system equations when using a digital computer in real-time. The procedure is specifically applied to the integration of the quaternion rate equations. For this application, results are compared to a classical second-order method. The local linearization approach is shown to have desirable stability characteristics and gives significant improvement in accuracy over the classical second-order integration methods.

Anderson localization in sigma models

NASA Astrophysics Data System (ADS)

Bruckmann, Falk; Wellnhofer, Jacob

2018-03-01

In QCD above the chiral restoration temperature there exists an Anderson transition in the fermion spectrum from localized to delocalized modes. We investigate whether the same holds for nonlinear sigma models which share properties like dynamical mass generation and asymptotic freedom with QCD. In particular we study the spectra of fermions coupled to (quenched) CP(N-1) configurations at high temperatures. We compare results in two and three space-time dimensions: in two dimensions the Anderson transition is absent, since all fermion modes are localized, while in three dimensions it is present. Our measurements include a more recent observable characterizing level spacings: the distribution of ratios of consecutive level spacings.

Solvent Exchange Leading to Nanobubble Nucleation: A Molecular Dynamics Study

PubMed Central

2017-01-01

The solvent exchange procedure has become the most-used protocol to produce surface nanobubbles, while the molecular mechanisms behind the solvent exchange are far from being fully understood. In this paper, we build a simple model and use molecular dynamics simulations to investigate the dynamic characteristics of solvent exchange for producing nanobubbles. We find that at the first stage of solvent exchange, there exists an interface between interchanging solvents of different gas solubility. This interface moves toward the substrate gradually as the exchange process proceeds. Our simulations reveal directed diffusion of gas molecules against the gas concentration gradient, driven by the solubility gradient of the liquid composition across the moving solvent–solvent interface. It is this directed diffusion that causes gas retention and produces a local gas oversaturation much higher near the substrate than far from it. At the second stage of solvent exchange, the high local gas oversaturation leads to bubble nucleation either on the solid surface or in the bulk solution, which is found to depend on the substrate hydrophobicity and the degree of local gas oversaturation. Our findings suggest that solvent exchange could be developed into a standard procedure to produce oversaturation and used to a variety of nucleation applications other than generating nanobubbles. PMID:28742364

Free energy landscape of a minimalist salt bridge model.

PubMed

Li, Xubin; Lv, Chao; Corbett, Karen M; Zheng, Lianqing; Wu, Dongsheng; Yang, Wei

2016-01-01

Salt bridges are essential to protein stability and dynamics. Despite the importance, there has been scarce of detailed discussion on how salt bridge partners interact with each other in distinct solvent exposed environments. In this study, employing a recent generalized orthogonal space tempering (gOST) method, we enabled efficient molecular dynamics simulation of repetitive breaking and reforming of salt bridge structures within a minimalist salt-bridge model, the Asp-Arg dipeptide and thereby were able to map its detailed free energy landscape in aqueous solution. Free energy surface analysis shows that although individually-solvated states are more favorable, salt-bridge states still occupy a noticeable portion of the overall population. Notably, the competing forces, e.g. intercharge attractions that drive the formation of salt bridges and solvation forces that pull the charged groups away from each other, are energetically comparable. As the result, the salt bridge stability is highly tunable by local environments; for instance when local water molecules are perturbed to interact more strongly with each other, the population of the salt-bridge states is likely to increase. Our results reveal the critical role of local solvent structures in modulating salt-bridge partner interactions and imply the importance of water fluctuations on conformational dynamics that involves solvent accessible salt bridge formations. © 2015 The Protein Society.

Quantitative imaging with fluorescent biosensors.

PubMed

Okumoto, Sakiko; Jones, Alexander; Frommer, Wolf B

2012-01-01

Molecular activities are highly dynamic and can occur locally in subcellular domains or compartments. Neighboring cells in the same tissue can exist in different states. Therefore, quantitative information on the cellular and subcellular dynamics of ions, signaling molecules, and metabolites is critical for functional understanding of organisms. Mass spectrometry is generally used for monitoring ions and metabolites; however, its temporal and spatial resolution are limited. Fluorescent proteins have revolutionized many areas of biology-e.g., fluorescent proteins can report on gene expression or protein localization in real time-yet promoter-based reporters are often slow to report physiologically relevant changes such as calcium oscillations. Therefore, novel tools are required that can be deployed in specific cells and targeted to subcellular compartments in order to quantify target molecule dynamics directly. We require tools that can measure enzyme activities, protein dynamics, and biophysical processes (e.g., membrane potential or molecular tension) with subcellular resolution. Today, we have an extensive suite of tools at our disposal to address these challenges, including translocation sensors, fluorescence-intensity sensors, and Förster resonance energy transfer sensors. This review summarizes sensor design principles, provides a database of sensors for more than 70 different analytes/processes, and gives examples of applications in quantitative live cell imaging.

Linear ultrafast dynamics of plasmon and magnetic resonances in nanoparticles

NASA Astrophysics Data System (ADS)

Lazzarini, Carlo Maria; Tadzio, Levato; Fitzgerald, Jamie M.; Sánchez-Gil, José A.; Giannini, Vincenzo

2017-12-01

In this study we present an analytical description of the ultrafast localized surface plasmon and magnetic resonance dynamics in a single nanoparticle (Ag or Si), driven by an ultrashort (fs time scale) Gaussian pulse. Three possible scenarios have been found depending on the incident field, i.e., pulse duration much shorter than, similar to, and much longer than the localized surface plasmon resonance (LSPR) lifetime. A rich physics arises for τpulse<τLSPR , even in the linear regime. The surface plasmon dynamics is manifested as (i) a temporal delay of the surface plasmon excitation with regard to the freely propagating pulse and as (ii) a negative exponential tail after the exciting pulse is over. In addition, for sub-fs pulses clear oscillations in the near-field decay have been observed. A similar scenario has been observed considering a nonabsorbing Si sphere. Nanoparticle resonance dynamics may lead to a wealth of new phenomena and applications in nanophotonics such as multipole order resonance interference, pulse-induced delay or temporal shaping on the fs scale, high harmonic generation, attosecond near-field pulse sources, and electron acceleration from metasurface or 3D engineered nanostructures.

Separation Dynamics of Controlled Internal Flow in an Adverse Pressure Gradient

NASA Astrophysics Data System (ADS)

Peterson, C. J.; Vukasinovic, B.; Glezer, A.

2017-11-01

The effects of fluidic actuation on the dynamic evolution of aggressive internal flow separation is investigated at speeds up to M = 0.4 within a constant-width diffuser branching off of a primary flow duct. It is shown that a spanwise array of fluidic actuators upstream of the separation actively controls the flow constriction (and losses) within the diffuser and consequently the local pressure gradient at its entrance. The effectiveness of the actuation, as may be measured by the increased flow rate that is diverted through the diffuser, scales with its flow rate coefficient. In the presence of actuation (0.7% mass fraction), the mass flow rate in the primary duct increases by 10% while the fraction of the diverted mass flow rate in the diffuser increases by more than 45%. The flow dynamics near separation in the absence and presence of actuation are characterized using high speed particle image velocimetry and analyzed using proper orthogonal and spectral decompositions. In particular, the spectral contents of the incipient boundary layer separation are compared in the absence and presence of actuation with emphasis on the changes in local dynamics near separation as the characteristic cross stream scale of the boundary layer increases with separation delay.

Isotope investigation on groundwater recharge and dynamics in shallow and deep alluvial aquifers of southwest Punjab.

PubMed

Keesari, Tirumalesh; Sharma, Diana A; Rishi, Madhuri S; Pant, Diksha; Mohokar, Hemant V; Jaryal, Ajay Kumar; Sinha, U K

2017-11-01

Groundwater samples collected from the alluvial aquifers of southwest Punjab, both shallow and deep zones were measured for environmental tritium ( 3 H) and stable isotopes ( 2 H and 18 O) to evaluate the source of recharge and aquifer dynamics. The shallow groundwater shows wide variation in isotopic signature (δ 18 O: -11.3 to -5.0‰) reflecting multiple sources of recharge. The average isotopic signature of shallow groundwaters (δ 18 O: -6.73 ± 1.03‰) is similar to that of local precipitation (-6.98 ± 1.66‰) indicating local precipitation contributes to a large extent compared to other sources. Other sources have isotopically distinct signatures due to either high altitude recharge (canal sources) or evaporative enrichment (irrigation return flow). Deep groundwater shows relatively depleted isotopic signature (δ 18 O: -8.6‰) and doesn't show any evaporation effect as compared to shallow zone indicating recharge from precipitation occurring at relatively higher altitudes. Environmental tritium indicates that both shallow ( 3 H: 5 - 10 T.U.) and deeper zone ( 3 H: 1.5 - 2.5 T.U.) groundwaters are modern. In general the inter-aquifer connections seem to be unlikely except a few places. Environmental isotope data suggests that shallow groundwater is dynamic, local and prone to changes in land use patterns while deep zone water is derived from distant sources, less dynamic and not impacted by surface manifestations. A conceptual groundwater flow diagram is presented. Copyright © 2017 Elsevier Ltd. All rights reserved.

Comminution of solids caused by kinetic energy of high shear strain rate, with implications for impact, shock, and shale fracturing.

PubMed

Bazant, Zdenek P; Caner, Ferhun C

2013-11-26

Although there exists a vast literature on the dynamic comminution or fragmentation of rocks, concrete, metals, and ceramics, none of the known models suffices for macroscopic dynamic finite element analysis. This paper outlines the basic idea of the macroscopic model. Unlike static fracture, in which the driving force is the release of strain energy, here the essential idea is that the driving force of comminution under high-rate compression is the release of the local kinetic energy of shear strain rate. The density of this energy at strain rates >1,000/s is found to exceed the maximum possible strain energy density by orders of magnitude, making the strain energy irrelevant. It is shown that particle size is proportional to the -2/3 power of the shear strain rate and the 2/3 power of the interface fracture energy or interface shear stress, and that the comminution process is macroscopically equivalent to an apparent shear viscosity that is proportional (at constant interface stress) to the -1/3 power of this rate. A dimensionless indicator of the comminution intensity is formulated. The theory was inspired by noting that the local kinetic energy of shear strain rate plays a role analogous to the local kinetic energy of eddies in turbulent flow.

Mount St. Helens (Washington, USA) and World Trade Center (New York, USA) collapse: a fluid dynamic analogy

NASA Astrophysics Data System (ADS)

Doronzo, Domenico; de Tullio, Marco; Pascazio, Giuseppe; Dellino, Pierfrancesco

2013-04-01

When a skyscraper collapses, the non-fragmented material is rapidly deposited close to the source, whereas the fragmented counterpart is loaded turbulently in the associated currents. Indeed, on impact with the ground, collapses of volcanic columns, domes, or sectors of volcanoes generate thick deposits of coarser material, and from there on the finer material is suspended over the landscape, to be re-deposited far away in thin deposits. Here, we explore the multiphase fluid dynamic behavior of the World Trade Center (New York, USA) collapse, which on 11 September 2001 followed the fragmentation of the Twin Towers, and generated shear dusty currents. These currents had a multiphase and turbulent behavior, and resemble the volcanic flow generated during the 18 May 1980 explosive eruption of Mount St. Helens (Washington, USA), in which a sector of the volcano collapsed, then a highly mobile, multiphase turbulent current followed and heavily interacted with the surrounding landscape. This analogy allows to focus on the comparison between volcanic and skyscraper collapse. A computational fluid dynamic investigation, along with a locally refined Cartesian grid, are adopted to simulate numerically the propagation of the 11 September dusty currents in Manhattan. Results of flow dynamic pressure, the parameter of volcanic hazard, and particle deposition reveal that the pressure can locally increase up to a factor 10 because of flow-building interaction. Also, the surrounding buildings make the urban setting as of a high turbulence and exponential decay of deposit thickness.

Dynamic full field OCT: metabolic contrast at subcellular level (Conference Presentation)

NASA Astrophysics Data System (ADS)

Apelian, Clement; Harms, Fabrice; Thouvenin, Olivier; Boccara, Claude A.

2016-03-01

Cells shape or density is an important marker of tissues pathology. However, individual cells are difficult to observe in thick tissues frequently presenting highly scattering structures such as collagen fibers. Endogenous techniques struggle to image cells in these conditions. Moreover, exogenous contrast agents like dyes, fluorophores or nanoparticles cannot always be used, especially if non-invasive imaging is required. Scatterers motion happening down to the millisecond scale, much faster than the still and highly scattering structures (global motion of the tissue), allowed us to develop a new approach based on the time dependence of the FF-OCT signals. This method reveals hidden cells after a spatiotemporal analysis based on singular value decomposition and wavelet analysis concepts. It does also give us access to local dynamics of imaged scatterers. This dynamic information is linked with the local metabolic activity that drives these scatterers. Our technique can explore subcellular scales with micrometric resolution and dynamics ranging from the millisecond to seconds. By this mean we studied a wide range of tissues, animal and human in both normal and pathological conditions (cancer, ischemia, osmotic shock…) in different organs such as liver, kidney, and brain among others. Different cells, undetectable with FF-OCT, were identified (erythrocytes, hepatocytes…). Different scatterers clusters express different characteristic times and thus can be related to different mechanisms that we identify with metabolic functions. We are confident that the D-FFOCT, by accessing to a new spatiotemporal metabolic contrast, will be a leading technique on tissue imaging and for better medical diagnosis.

Responses to climate change in hot desert ecosystems: connecting local to global scales

USDA-ARS?s Scientific Manuscript database

The consequences of connectivity in resources, propagules, and information to the interplay between drivers and responses across scales can result in ecological dynamics that are not easily predicted based on local drivers. Three major classes of connectivity events link local ecological dynamics wi...

Conformational analysis of processivity clamps in solution demonstrates that tertiary structure does not correlate with protein dynamics.

PubMed

Fang, Jing; Nevin, Philip; Kairys, Visvaldas; Venclovas, Česlovas; Engen, John R; Beuning, Penny J

2014-04-08

The relationship between protein sequence, structure, and dynamics has been elusive. Here, we report a comprehensive analysis using an in-solution experimental approach to study how the conservation of tertiary structure correlates with protein dynamics. Hydrogen exchange measurements of eight processivity clamp proteins from different species revealed that, despite highly similar three-dimensional structures, clamp proteins display a wide range of dynamic behavior. Differences were apparent both for structurally similar domains within proteins and for corresponding domains of different proteins. Several of the clamps contained regions that underwent local unfolding with different half-lives. We also observed a conserved pattern of alternating dynamics of the α helices lining the inner pore of the clamps as well as a correlation between dynamics and the number of salt bridges in these α helices. Our observations reveal that tertiary structure and dynamics are not directly correlated and that primary structure plays an important role in dynamics. Copyright © 2014 Elsevier Ltd. All rights reserved.

Dynamics of exciton transfer in coupled polymer chains.

PubMed

Zhang, Y L; Liu, X J; Sun, Z; An, Z

2013-05-07

The dynamics of singlet and triplet exciton transfer in coupled polymer chains are investigated within the Su-Schrieffer-Heeger+Pariser-Parr-Pople model including both electron-phonon (e-p) coupling and electron-electron (e-e) interactions, using a multi-configurational time-dependent Hartree-Fock dynamic method. In order to explain the processes involved, the effects of on-site and long-range e-e interactions on the locality of the singlet and triplet excitons are first investigated on an isolated chain. It is found that the locality of the singlet exciton decreases, while the locality of the triplet exciton increases with an increase in the on-site e-e interactions. On the other hand, an increase in the long-range e-e interaction results in a more localized singlet exciton and triplet exciton. In coupled polymer chains, we then quantitatively show the yields of singlet and triplet exciton transfer products under the same interchain coupling. It is found that the yield of singlet interchain excitons is much higher than that of triplet interchain excitons, that is to say, singlet exciton transfer is significantly easier than that for triplet excitons. This results from the fact that the singlet exciton is more delocalized than the triplet exciton. In addition, hopping of electrons with opposite spins between the coupled chains can facilitate the transfer of singlet excitons. The results are of great significance for understanding the photoelectric conversion process and developing high-power organic optoelectronic applications.

The role of quench rate in colloidal gels.

PubMed

Royall, C Patrick; Malins, Alex

2012-01-01

Interactions between colloidal particles have hitherto usually been fixed by the suspension composition. Recent experimental developments now enable the control of interactions in situ. Here we use Brownian dynamics simulations to investigate the effect of controlling interactions upon gelation, by "quenching" the system from an equilibrium fluid to a gel. We find that, contrary to the normal case of an instantaneous quench, where the local structure of the gel is highly disordered, controlled quenching results in a gel with a much higher degree of local order. Under sufficiently slow quenching, local crystallisation is found, which is strongly enhanced when a monodisperse system is used. The higher the degree of local order, the smaller the mean squared displacement, indicating an enhancement of gel stability.

Three-Dimensional Numerical Simulation on Passively Excited Flows by Distributed Local Hot Sources Settled at the D" Layer Below Hotspots and/or Large-Scale Cool Masses at Subduction Zones Within the Static Layered Mantle

NASA Astrophysics Data System (ADS)

Eguchi, T.; Matsubara, K.; Ishida, M.

2001-12-01

To unveil dynamic process associated with three-dimensional unsteady mantle convection, we carried out numerical simulation on passively exerted flows by simplified local hot sources just above the CMB and large-scale cool masses beneath smoothed subduction zones. During the study, we used our individual code developed with the finite difference method. The basic three equations are for the continuity, the motion with the Boussinesq (incompressible) approximation, and the (thermal) energy conservation. The viscosity of our model is sensitive to temperature. To get time integration with high precision, we used the Newton method. In detail, the size and thermal energy of the hot or cool sources are not uniform along the latitude, because we could not select uniform local volumes assigned for the sources within the finite difference grids throughout the mantle. Our results, thus, accompany some latitude dependence. First, we treated the case of the hotspots, neglecting the contribution of the subduction zones. The local hot sources below the currently active hotspots were settled as dynamic driving forces included in the initial condition. Before starting the calculation, we assumed that the mantle was statically layered with zero velocity component. The thermal anomalies inserted instantaneously in the initial condition do excite dynamically passive flows. The type of the initial hot sources was not 'plume' but 'thermal.' The simulation results represent that local upwelling flows which were directly excited over the initial heat sources reached the upper mantle by approximately 30 My during the calculation. Each of the direct upwellings above the hotspots has its own dynamic potential to exert concentric down- and up-welling flows, alternately, at large distances. Simultaneously, the direct upwellings interact mutually within the spherical mantle. As an interesting feature, we numerically observed secondary upwellings somewhere in a wide region covering east Eurasia to the Bering Sea where no hot sources were initially input. It seems that the detailed location of the secondary upwellings depends partly on the numerical parameters such as the radial profile of mantle viscosity especially at the D" layer, etc., because the secondary flows are provoked by dynamic interaction among the distributed direct upwellings just above the CMB. Our results suggest that if we assume not only non-zero time delays during the input of the local hot sources but also parameters related with the difference of their historical surface flux rates, the pattern of the passively excited flows will be different from that obtained with the simultaneously settled hot sources stated above. Second, we simultaneously incorporated simplified thermal anomaly models associated with both the distributed local hotspots and the global subduction zones, as dynamic origins in the initial condition for the static layered mantle. In this case, the simulation result represents that the pattern of secondary radial flows, being different from those in the earlier case, is sensitive to the relative strength between the positive dynamic buoyancy integrated over all of the local hot sources below the hotspots and the total negative buoyancy beneath the subduction zones.

[Evaluation of the clinical efficacy of a new composition of tizol with triamcinolon in complex treatment of patients with erosive ulcerous form of lichen planus of the oral mucosa].

PubMed

Ron', G I; Akmalova, G M; Emel'yanova, I V

2015-01-01

The most significant of the primary stages of complex therapy of oral lichen planus (OLP), among causal and pathogenetic therapy is a local conservative treatment. The aim of the study was to evaluate the clinical efficacy of the local use of the new compositions TIZOL with triamcinolon in complex therapy of erosive-ulcerous forms OLP oral mucosa. The study was performed with 47 patients with lichen planus in age from 24 to 70 years with erosive-ulcerous form OLP whose diagnosis was confirmed histologically. The first group included 25 patients in the complex treatment of locally applied composition TIZOL with triamcinolon. The second group of 22 people, who in the complex treatment applied locally 0.5% prednisone ointment. The high efficiency of topical TIZOL with a highly topical steroid in the complex therapy of erosive-ulcerous forms OLP, which was confirmed by the positive clinical dynamics in all patients (100%) and high self-esteem of patients (84% positive ratings), reduced life complete epithelialization of erosions.

Mantle to Surface Dynamics Across Subduction-Collision Transitions in Space and Time: Results from the CD-CAT Project in Anatolia

NASA Astrophysics Data System (ADS)

Whitney, D. L.; Abgarmi, B.; Beck, S. L.; Brocard, G. Y.; Cosca, M. A.; Darin, M. H.; Delph, J. R.; Hui, H.; Kahraman, M.; Kaymakci, N.; Kuscu, G.; Meijers, M. J.; Mulch, A.; Özacar, A.; Portner, D. E.; Reid, M. R.; Rey, P. F.; Rojay, B.; Schlieffarth, W. K.; Sandvol, E. A.; Schoenbohm, L. M.; Tank, B.; Teoman, U.; Teyssier, C. P.; Thomson, S. N.; Turkelli, N.; Umhoefer, P. J.; Uslular, G.; Willenbring, J. K.

2017-12-01

From west to east, the southern plate boundary of Anatolia varies from subduction to continental collision; plate dynamics are influenced by the interaction of back-arc extension in the west (Aegean) and convergence in the east (Arabia-Eurasia). Prior to 40 Ma, the entire margin was a subduction zone. The NSF project "Continental Dynamics-Central Anatolian Tectonics (CD-CAT)" has contributed to understanding how the mantle, crust, and surface evolve in subduction-to-collision transitions in time and space. Differences are seen in changes in deformation style as collision proceeded; e.g. from distributed across a broad zone to highly localized on a series of oblique-slip faults, and from transpression to transtension (W of the Central Anatolian fault zone, CAFZ) or strike-slip (E of the CAFZ); age, composition, and sources of magmatism, including a magmatic lull from 40-20 Ma, followed by expansion of magmatism SE-ward in central Anatolia; properties and architecture of the lithosphere and sub-lithospheric mantle (e.g. significant and locally abrupt crustal thickness variations, including thick crust under the Tauride Mts; thin to absent lithospheric mantle; and a torn and disaggregating slab that varies from shallow to steep below central Anatolia); and a topographic gradient from a high eastern plateau (> 2 km) to a central plateau (1-1.5 km) bounded to the N and S by mountain ranges that rose > 2 km from the sea between 11-5 Ma, producing a rain shadow in the Anatolian interior. Thermochronologic and structural studies of exhumed mid-crust and associated basins and fault zones as well as geophysical data for Anatolia today show the extent to which inherited features (suture zones, faults) have affected the tectonic evolution of Anatolia, particularly in the vicinity of the CAFZ/East Anatolian Fault, and mantle properties. Results also show that the Miocene was a dynamic time in the thermal and mechanical evolution of the region, as early Miocene rollback/foundering of the subducted slab drove major volcanism, faulting, and landscape changes (uplift). Slab dynamics below Anatolia accelerated the late Miocene-Pliocene transition from distributed to highly localized deformation, including inception of the North and East Anatolia strike-slip faults that today accommodate tectonic escape of Anatolia.

Dynamic localization and shear-induced hopping of particles: A way to understand the rheology of dense colloidal dispersions

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jiang, Tianying; Zukoski, Charles F., E-mail: czukoski@illinois.edu

2014-09-01

For decades, attempts have been made to understand the formation of colloidal glasses and gels by linking suspension mechanics to particle properties where details of size, shape, and spatial dependencies of pair potentials present a bewildering array of variables that can be manipulated to achieve observed properties. Despite the range of variables that control suspension properties, one consistent observation is the remarkably similarity of flow properties observed as particle properties are varied. Understanding the underlying origins of the commonality in those behaviors (e.g., shear-thinning with increasing stress, diverging zero shear rate viscosity with increasing volume fraction, development of a dynamicmore » yield stress plateau with increases in volume faction or strength of attraction, development of two characteristic relaxation times probed in linear viscoelasticity, the creation of a rubbery plateau modulus at high strain frequencies, and shear-thickening) remains a challenge. Recently, naïve mode coupling and dynamic localization theories have been developed to capture collective behavior giving rise to formation of colloidal glasses and gels. This approach characterizes suspension mechanics of strongly interacting particles in terms of sluggish long-range particle diffusion modulated by varying particle interactions and volume fraction. These theories capture the scaling of the modulus with the volume fraction and strength of interparticle attraction, the frequency dependence of the moduli at the onset of the gel/glass transition, together with the divergence of the zero shear rate viscosity and cessation of diffusivity for hard sphere systems as close packing is approached. In this study, we explore the generality of the predictions of dynamic localization theory for systems of particles composed of bimodal particle size distributions experiencing weak interactions. We find that the mechanical properties of these suspensions are well captured within the framework of dynamic localization theory and that suspension mechanics can be understood in terms of a dynamical potential barrier, the magnitude of which governs the zero shear rate viscosity, and onset of a dynamic yield stress plateau as volume fraction or strength of interaction is raised.« less

The Energy Landscape Analysis of Cancer Mutations in Protein Kinases

PubMed Central

Dixit, Anshuman; Verkhivker, Gennady M.

2011-01-01

The growing interest in quantifying the molecular basis of protein kinase activation and allosteric regulation by cancer mutations has fueled computational studies of allosteric signaling in protein kinases. In the present study, we combined computer simulations and the energy landscape analysis of protein kinases to characterize the interplay between oncogenic mutations and locally frustrated sites as important catalysts of allostetric kinase activation. While structurally rigid kinase core constitutes a minimally frustrated hub of the catalytic domain, locally frustrated residue clusters, whose interaction networks are not energetically optimized, are prone to dynamic modulation and could enable allosteric conformational transitions. The results of this study have shown that the energy landscape effect of oncogenic mutations may be allosteric eliciting global changes in the spatial distribution of highly frustrated residues. We have found that mutation-induced allosteric signaling may involve a dynamic coupling between structurally rigid (minimally frustrated) and plastic (locally frustrated) clusters of residues. The presented study has demonstrated that activation cancer mutations may affect the thermodynamic equilibrium between kinase states by allosterically altering the distribution of locally frustrated sites and increasing the local frustration in the inactive form, while eliminating locally frustrated sites and restoring structural rigidity of the active form. The energy landsape analysis of protein kinases and the proposed role of locally frustrated sites in activation mechanisms may have useful implications for bioinformatics-based screening and detection of functional sites critical for allosteric regulation in complex biomolecular systems. PMID:21998754

Seeing real-space dynamics of liquid water through inelastic x-ray scattering.

PubMed

Iwashita, Takuya; Wu, Bin; Chen, Wei-Ren; Tsutsui, Satoshi; Baron, Alfred Q R; Egami, Takeshi

2017-12-01

Water is ubiquitous on earth, but we know little about the real-space motion of molecules in liquid water. We demonstrate that high-resolution inelastic x-ray scattering measurement over a wide range of momentum and energy transfer makes it possible to probe real-space, real-time dynamics of water molecules through the so-called Van Hove function. Water molecules are found to be strongly correlated in space and time with coupling between the first and second nearest-neighbor molecules. The local dynamic correlation of molecules observed here is crucial to a fundamental understanding of the origin of the physical properties of water, including viscosity. The results also suggest that the quantum-mechanical nature of hydrogen bonds could influence its dynamics. The approach used here offers a powerful experimental method for investigating real-space dynamics of liquids.

Complexity and dynamics of topological and community structure in complex networks

NASA Astrophysics Data System (ADS)

Berec, Vesna

2017-07-01

Complexity is highly susceptible to variations in the network dynamics, reflected on its underlying architecture where topological organization of cohesive subsets into clusters, system's modular structure and resulting hierarchical patterns, are cross-linked with functional dynamics of the system. Here we study connection between hierarchical topological scales of the simplicial complexes and the organization of functional clusters - communities in complex networks. The analysis reveals the full dynamics of different combinatorial structures of q-th-dimensional simplicial complexes and their Laplacian spectra, presenting spectral properties of resulting symmetric and positive semidefinite matrices. The emergence of system's collective behavior from inhomogeneous statistical distribution is induced by hierarchically ordered topological structure, which is mapped to simplicial complex where local interactions between the nodes clustered into subcomplexes generate flow of information that characterizes complexity and dynamics of the full system.

Advanced solid-state NMR techniques for characterization of membrane protein structure and dynamics: Application to Anabaena Sensory Rhodopsin

NASA Astrophysics Data System (ADS)

Ward, Meaghan E.; Brown, Leonid S.; Ladizhansky, Vladimir

2015-04-01

Studies of the structure, dynamics, and function of membrane proteins (MPs) have long been considered one of the main applications of solid-state NMR (SSNMR). Advances in instrumentation, and the plethora of new SSNMR methodologies developed over the past decade have resulted in a number of high-resolution structures and structural models of both bitopic and polytopic α-helical MPs. The necessity to retain lipids in the sample, the high proportion of one type of secondary structure, differential dynamics, and the possibility of local disorder in the loop regions all create challenges for structure determination. In this Perspective article we describe our recent efforts directed at determining the structure and functional dynamics of Anabaena Sensory Rhodopsin, a heptahelical transmembrane (7TM) protein. We review some of the established and emerging methods which can be utilized for SSNMR-based structure determination, with a particular focus on those used for ASR, a bacterial protein which shares its 7TM architecture with G-protein coupled receptors.

Phase-based, high spatial resolution and distributed, static and dynamic strain sensing using Brillouin dynamic gratings in optical fibers.

PubMed

Bergman, Arik; Langer, Tomi; Tur, Moshe

2017-03-06

A novel technique combining Brillouin phase-shift measurements with Brillouin dynamic gratings (BDGs) reflectometry in polarization-maintaining fibers is presented here for the first time. While a direct measurement of the optical phase in standard BDG setups is impractical due to non-local phase contributions, their detrimental effect is reduced by ~4 orders of magnitude through the coherent addition of Stokes and anti-Stokes reflections from two counter-propagating BDGs in the fiber. The technique advantageously combines the high-spatial-resolution of BDGs reflectometry with the increased tolerance to optical power fluctuations of phasorial measurements, to enhance the performance of fiber-optic strain sensors. We demonstrate a distributed measurement (20cm spatial-resolution) of both static and dynamic (5kHz of vibrations at a sampling rate of 1MHz) strain fields acting on the fiber, in good agreement with theory and (for the static case) with the results of commercial reflectometers.

Fast and robust wavelet-based dynamic range compression and contrast enhancement model with color restoration

NASA Astrophysics Data System (ADS)

Unaldi, Numan; Asari, Vijayan K.; Rahman, Zia-ur

2009-05-01

Recently we proposed a wavelet-based dynamic range compression algorithm to improve the visual quality of digital images captured from high dynamic range scenes with non-uniform lighting conditions. The fast image enhancement algorithm that provides dynamic range compression, while preserving the local contrast and tonal rendition, is also a good candidate for real time video processing applications. Although the colors of the enhanced images produced by the proposed algorithm are consistent with the colors of the original image, the proposed algorithm fails to produce color constant results for some "pathological" scenes that have very strong spectral characteristics in a single band. The linear color restoration process is the main reason for this drawback. Hence, a different approach is required for the final color restoration process. In this paper the latest version of the proposed algorithm, which deals with this issue is presented. The results obtained by applying the algorithm to numerous natural images show strong robustness and high image quality.

Dynamic shear deformation in high purity Fe

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cerreta, Ellen K; Bingert, John F; Trujillo, Carl P

2009-01-01

The forced shear test specimen, first developed by Meyer et al. [Meyer L. et al., Critical Adiabatic Shear Strength of Low Alloyed Steel Under Compressive Loading, Metallurgical Applications of Shock Wave and High Strain Rate Phenomena (Marcel Decker, 1986), 657; Hartmann K. et al., Metallurgical Effects on Impact Loaded Materials, Shock Waves and High Strain rate Phenomena in Metals (Plenum, 1981), 325-337.], has been utilized in a number of studies. While the geometry of this specimen does not allow for the microstructure to exactly define the location of shear band formation and the overall mechanical response of a specimen ismore » highly sensitive to the geometry utilized, the forced shear specimen is useful for characterizing the influence of parameters such as strain rate, temperature, strain, and load on the microstructural evolution within a shear band. Additionally, many studies have utilized this geometry to advance the understanding of shear band development. In this study, by varying the geometry, specifically the ratio of the inner hole to the outer hat diameter, the dynamic shear localization response of high purity Fe was examined. Post mortem characterization was performed to quantify the width of the localizations and examine the microstructural and textural evolution of shear deformation in a bcc metal. Increased instability in mechanical response is strongly linked with development of enhanced intergranular misorientations, high angle boundaries, and classical shear textures characterized through orientation distribution functions.« less

Heritable stress response dynamics revealed by single-cell genealogy

PubMed Central

2018-01-01

Cells often respond to environmental stimuli by activating specific transcription factors. Upon exposure to glucose limitation stress, it is known that yeast Saccharomyces cerevisiae cells dephosphorylate the general stress response factor Msn2, leading to its nuclear localization, which in turn activates the expression of many genes. However, the precise dynamics of Msn2 nucleocytoplasmic translocations and whether they are inherited over multiple generations in a stress-dependent manner are not well understood. Tracking Msn2 localization events in yeast lineages grown on a microfluidic chip, here we report how cells modulate the amplitude, duration, frequency, and dynamic pattern of the localization events in response to glucose limitation stress. Single yeast cells were found to modulate the amplitude and frequency of Msn2 nuclear localization, but not its duration. Moreover, the Msn2 localization frequency was epigenetically inherited in descendants of mother cells, leading to a decrease in cell-to-cell variation in localization frequency. An analysis of the time dynamic patterns of nuclear localizations between genealogically related cell pairs using an information theory approach found that the magnitude of pattern similarity increased with stress intensity and was strongly inherited by the descendant cells at the highest stress level. By dissecting how general stress response dynamics is contributed by different modulation schemes over long time scales, our work provides insight into which scheme evolution might have acted on to optimize fitness in stressful environments. PMID:29675464

Coherent band excitations in CePd 3: A comparison of neutron scattering and ab initio theory

DOE Office of Scientific and Technical Information (OSTI.GOV)

Goremychkin, Eugene A.; Park, Hyowon; Osborn, Raymond

In common with many strongly correlated electron systems, intermediate valence compounds are believed to display a crossover from a high-temperature regime of incoherently fluctuating local moments to a low-temperature regime of coherent hybridized bands. In this work, we show that inelastic neutron scattering measurements of the dynamic magnetic susceptibility of CePd 3 provides a benchmark for ab initio calculations based on dynamical mean field theory. The magnetic response is strongly momentum dependent thanks to the formation of coherent f-electron bands at low temperature, with an amplitude that is strongly enhanced by local particle-hole interactions. Finally, the agreement between experiment andmore » theory shows that we have a robust first-principles understanding of the temperature dependence of f-electron coherence.« less

Tangent map intermittency as an approximate analysis of intermittency in a high dimensional fully stochastic dynamical system: The Tangled Nature model.

PubMed

Diaz-Ruelas, Alvaro; Jeldtoft Jensen, Henrik; Piovani, Duccio; Robledo, Alberto

2016-12-01

It is well known that low-dimensional nonlinear deterministic maps close to a tangent bifurcation exhibit intermittency and this circumstance has been exploited, e.g., by Procaccia and Schuster [Phys. Rev. A 28, 1210 (1983)], to develop a general theory of 1/f spectra. This suggests it is interesting to study the extent to which the behavior of a high-dimensional stochastic system can be described by such tangent maps. The Tangled Nature (TaNa) Model of evolutionary ecology is an ideal candidate for such a study, a significant model as it is capable of reproducing a broad range of the phenomenology of macroevolution and ecosystems. The TaNa model exhibits strong intermittency reminiscent of punctuated equilibrium and, like the fossil record of mass extinction, the intermittency in the model is found to be non-stationary, a feature typical of many complex systems. We derive a mean-field version for the evolution of the likelihood function controlling the reproduction of species and find a local map close to tangency. This mean-field map, by our own local approximation, is able to describe qualitatively only one episode of the intermittent dynamics of the full TaNa model. To complement this result, we construct a complete nonlinear dynamical system model consisting of successive tangent bifurcations that generates time evolution patterns resembling those of the full TaNa model in macroscopic scales. The switch from one tangent bifurcation to the next in the sequences produced in this model is stochastic in nature, based on criteria obtained from the local mean-field approximation, and capable of imitating the changing set of types of species and total population in the TaNa model. The model combines full deterministic dynamics with instantaneous parameter random jumps at stochastically drawn times. In spite of the limitations of our approach, which entails a drastic collapse of degrees of freedom, the description of a high-dimensional model system in terms of a low-dimensional one appears to be illuminating.

Plate Like Convection with Viscous Strain Weakening and Corresponding Surface Deformation Pattern

NASA Astrophysics Data System (ADS)

Fuchs, L.; Becker, T. W.

2017-12-01

How plate tectonic surface motions are generated by mantle convection on Earth and possibly other terrestrial type planets has recently become more readily accessible with fully dynamic convection computations. However, it remains debated how plate-like the behavior in such models truly is, and in particular how the well plate boundary dynamics are captured in models which typically exclude the effects of deformation history and memory. Here, we analyze some of the effects of viscous strain weakening on plate behavior and the interactions between interior convection dynamics and surface deformation patterns. We use the finite element code CitcomCU to model convection in a 3D Cartesian model setup. The models are internally heated, with an Arrhenius-type temperature dependent viscosity including plastic yielding and viscous strain weakening (VSW) and healing (VSWH). VSW can mimic first order features of more complex damage mechanisms such as grain-size dependent rheology. Besides plate diagnostic parameters (Plateness, Mobility, and Toroidal: Poloidal ratio) to analyze the tectonic behavior our models, we also explore how "plate boundaries" link to convective patterns. In a first model series, we analyze general surface deformation patterns without VSW. In the early stages, deformation patterns are clearly co-located with up- and downwelling limbs of convection. Along downwellings strain-rates are high and localized, whereas upwellings tend to lead to broad zones of high deformation. At a more advanced stage, however, the plates' interior is highly deformed due to continuous strain accumulation and resurfaced inherited strain. Including only VSW leads to more localized deformation along downwellings. However, at a more advanced stage plate-like convection fails due an overall weakening of the material. This is prevented including strain healing. Deformation pattern at the surface more closely coincide with the internal convection patterns. The average surface deformation is reduced significantly and mainly governed by the location of the up- and downwellings. VSWH thereby affects plate dynamics due to two main properties: the intensity of weakening with increasing strain and the strain healing rate. As both increase, mobility increases as well and strain becomes more localized at the downwellings.

A High-Speed, Event-Driven, Active Pixel Sensor Readout for Photon-Counting Microchannel Plate Detectors

NASA Technical Reports Server (NTRS)

Kimble, Randy A.; Pain, Bedabrata; Norton, Timothy J.; Haas, J. Patrick; Oegerle, William R. (Technical Monitor)

2002-01-01

Silicon array readouts for microchannel plate intensifiers offer several attractive features. In this class of detector, the electron cloud output of the MCP intensifier is converted to visible light by a phosphor; that light is then fiber-optically coupled to the silicon array. In photon-counting mode, the resulting light splashes on the silicon array are recognized and centroided to fractional pixel accuracy by off-chip electronics. This process can result in very high (MCP-limited) spatial resolution while operating at a modest MCP gain (desirable for dynamic range and long term stability). The principal limitation of intensified CCD systems of this type is their severely limited local dynamic range, as accurate photon counting is achieved only if there are not overlapping event splashes within the frame time of the device. This problem can be ameliorated somewhat by processing events only in pre-selected windows of interest of by using an addressable charge injection device (CID) for the readout array. We are currently pursuing the development of an intriguing alternative readout concept based on using an event-driven CMOS Active Pixel Sensor. APS technology permits the incorporation of discriminator circuitry within each pixel. When coupled with suitable CMOS logic outside the array area, the discriminator circuitry can be used to trigger the readout of small sub-array windows only when and where an event splash has been detected, completely eliminating the local dynamic range problem, while achieving a high global count rate capability and maintaining high spatial resolution. We elaborate on this concept and present our progress toward implementing an event-driven APS readout.

Constraint Embedding Technique for Multibody System Dynamics

NASA Technical Reports Server (NTRS)

Woo, Simon S.; Cheng, Michael K.

2011-01-01

Multibody dynamics play a critical role in simulation testbeds for space missions. There has been a considerable interest in the development of efficient computational algorithms for solving the dynamics of multibody systems. Mass matrix factorization and inversion techniques and the O(N) class of forward dynamics algorithms developed using a spatial operator algebra stand out as important breakthrough on this front. Techniques such as these provide the efficient algorithms and methods for the application and implementation of such multibody dynamics models. However, these methods are limited only to tree-topology multibody systems. Closed-chain topology systems require different techniques that are not as efficient or as broad as those for tree-topology systems. The closed-chain forward dynamics approach consists of treating the closed-chain topology as a tree-topology system subject to additional closure constraints. The resulting forward dynamics solution consists of: (a) ignoring the closure constraints and using the O(N) algorithm to solve for the free unconstrained accelerations for the system; (b) using the tree-topology solution to compute a correction force to enforce the closure constraints; and (c) correcting the unconstrained accelerations with correction accelerations resulting from the correction forces. This constraint-embedding technique shows how to use direct embedding to eliminate local closure-loops in the system and effectively convert the system back to a tree-topology system. At this point, standard tree-topology techniques can be brought to bear on the problem. The approach uses a spatial operator algebra approach to formulating the equations of motion. The operators are block-partitioned around the local body subgroups to convert them into aggregate bodies. Mass matrix operator factorization and inversion techniques are applied to the reformulated tree-topology system. Thus in essence, the new technique allows conversion of a system with closure-constraints into an equivalent tree-topology system, and thus allows one to take advantage of the host of techniques available to the latter class of systems. This technology is highly suitable for the class of multibody systems where the closure-constraints are local, i.e., where they are confined to small groupings of bodies within the system. Important examples of such local closure-constraints are constraints associated with four-bar linkages, geared motors, differential suspensions, etc. One can eliminate these closure-constraints and convert the system into a tree-topology system by embedding the constraints directly into the system dynamics and effectively replacing the body groupings with virtual aggregate bodies. Once eliminated, one can apply the well-known results and algorithms for tree-topology systems to solve the dynamics of such closed-chain system.

Nonequilibrium quantum dynamics and transport: from integrability to many-body localization

NASA Astrophysics Data System (ADS)

Vasseur, Romain; Moore, Joel E.

2016-06-01

We review the non-equilibrium dynamics of many-body quantum systems after a quantum quench with spatial inhomogeneities, either in the Hamiltonian or in the initial state. We focus on integrable and many-body localized systems that fail to self-thermalize in isolation and for which the standard hydrodynamical picture breaks down. The emphasis is on universal dynamics, non-equilibrium steady states and new dynamical phases of matter, and on phase transitions far from thermal equilibrium. We describe how the infinite number of conservation laws of integrable and many-body localized systems lead to complex non-equilibrium states beyond the traditional dogma of statistical mechanics.

Nocturnal Near-Surface Temperature, but not Flow Dynamics, can be Predicted by Microtopography in a Mid-Range Mountain Valley

NASA Astrophysics Data System (ADS)

Pfister, Lena; Sigmund, Armin; Olesch, Johannes; Thomas, Christoph K.

2017-11-01

We investigate nocturnal flow dynamics and temperature behaviour near the surface of a 170-m long gentle slope in a mid-range mountain valley. In contrast to many existing studies focusing on locations with significant topographic variations, gentle slopes cover a greater spatial extent of the Earth's surface. Air temperatures were measured using the high-resolution distributed-temperature-sensing method within a two-dimensional fibre-optic array in the lowest metre above the surface. The main objectives are to characterize the spatio-temporal patterns in the near-surface temperature and flow dynamics, and quantify their responses to the microtopography and land cover. For the duration of the experiment, including even clear-sky nights with weak winds and strong radiative forcing, the classical cold-air drainage predicted by theory could not be detected. In contrast, we show that the airflow for the two dominant flow modes originates non-locally. The most abundant flow mode is characterized by vertically-decoupled layers featuring a near-surface flow perpendicular to the slope and strong stable stratification, which contradicts the expectation of a gravity-driven downslope flow of locally produced cold air. Differences in microtopography and land cover clearly affect spatio-temporal temperature perturbations. The second most abundant flow mode is characterized by strong mixing, leading to vertical coupling with airflow directed down the local slope. Here variations of microtopography and land cover lead to negligible near-surface temperature perturbations. We conclude that spatio-temporal temperature perturbations, but not flow dynamics, can be predicted by microtopography, which complicates the prediction of advective-heat components and the existence and dynamics of cold-air pools in gently sloped terrain in the absence of observations.

Dynamic measurements of flowing cells labeled by gold nanoparticles using full-field photothermal interferometric imaging

NASA Astrophysics Data System (ADS)

Turko, Nir A.; Roitshtain, Darina; Blum, Omry; Kemper, Björn; Shaked, Natan T.

2017-06-01

We present highly dynamic photothermal interferometric phase microscopy for quantitative, selective contrast imaging of live cells during flow. Gold nanoparticles can be biofunctionalized to bind to specific cells, and stimulated for local temperature increase due to plasmon resonance, causing a rapid change of the optical phase. These phase changes can be recorded by interferometric phase microscopy and analyzed to form an image of the binding sites of the nanoparticles in the cells, gaining molecular specificity. Since the nanoparticle excitation frequency might overlap with the sample dynamics frequencies, photothermal phase imaging was performed on stationary or slowly dynamic samples. Furthermore, the computational analysis of the photothermal signals is time consuming. This makes photothermal imaging unsuitable for applications requiring dynamic imaging or real-time analysis, such as analyzing and sorting cells during fast flow. To overcome these drawbacks, we utilized an external interferometric module and developed new algorithms, based on discrete Fourier transform variants, enabling fast analysis of photothermal signals in highly dynamic live cells. Due to the self-interference module, the cells are imaged with and without excitation in video-rate, effectively increasing signal-to-noise ratio. Our approach holds potential for using photothermal cell imaging and depletion in flow cytometry.

Development and Implementation of Dynamic Scripts to Support Local Model Verification at National Weather Service Weather Forecast Offices

NASA Technical Reports Server (NTRS)

Zavordsky, Bradley; Case, Jonathan L.; Gotway, John H.; White, Kristopher; Medlin, Jeffrey; Wood, Lance; Radell, Dave

2014-01-01

Local modeling with a customized configuration is conducted at National Weather Service (NWS) Weather Forecast Offices (WFOs) to produce high-resolution numerical forecasts that can better simulate local weather phenomena and complement larger scale global and regional models. The advent of the Environmental Modeling System (EMS), which provides a pre-compiled version of the Weather Research and Forecasting (WRF) model and wrapper Perl scripts, has enabled forecasters to easily configure and execute the WRF model on local workstations. NWS WFOs often use EMS output to help in forecasting highly localized, mesoscale features such as convective initiation, the timing and inland extent of lake effect snow bands, lake and sea breezes, and topographically-modified winds. However, quantitatively evaluating model performance to determine errors and biases still proves to be one of the challenges in running a local model. Developed at the National Center for Atmospheric Research (NCAR), the Model Evaluation Tools (MET) verification software makes performing these types of quantitative analyses easier, but operational forecasters do not generally have time to familiarize themselves with navigating the sometimes complex configurations associated with the MET tools. To assist forecasters in running a subset of MET programs and capabilities, the Short-term Prediction Research and Transition (SPoRT) Center has developed and transitioned a set of dynamic, easily configurable Perl scripts to collaborating NWS WFOs. The objective of these scripts is to provide SPoRT collaborating partners in the NWS with the ability to evaluate the skill of their local EMS model runs in near real time with little prior knowledge of the MET package. The ultimate goal is to make these verification scripts available to the broader NWS community in a future version of the EMS software. This paper provides an overview of the SPoRT MET scripts, instructions for how the scripts are run, and example use cases.

Investigation of subcellular localization and dynamics of membrane proteins in living bacteria by combining optical micromanipulation and high-resolution microscopy (Conference Presentation)

NASA Astrophysics Data System (ADS)

Barroso Peña, Álvaro; Nieves, Marcos; Teper, Konrad; Wedlich-Soldner, Roland; Denz, Cornelia

2016-09-01

The plasma membrane serves as protective interface between cells and their environment. It also constitutes a hub for selective nutrient uptake and signal transduction. Increasing evidence over the last years indicates that, similar to eukaryotic cells, lateral membrane organization plays an important role in the regulation of prokaryotic signaling pathways. However, the mechanisms underlying this phenomenon are still poorly understood. Spatiotemporal characterization of bacterial signal transduction demands very sensitive high-resolution microscopy techniques due to the low expression levels of most signaling proteins and the small size of bacterial cells. In addition, direct study of subcellular confinement and dynamics of bacterial signaling proteins during the different stages of the signal transduction also requires immobilization in order to avoid cell displacement caused by Brownian motion, local fluid flows and bacterial self-propulsion. In this work we present a novel approach based on the combination of high resolution imaging and optical manipulation that enables the investigation of the distribution and dynamics of proteins at the bacterial plasma membrane. For this purpose, we combine the versatility of holographic optical tweezers (HOT) with the sensitivity and resolution of total internal reflection fluorescence (TIRF) microscopy. Furthermore, we discuss the implementation of microfluidic devices in our integrated HOT+TIRF system for the control of growth conditions of bacterial cells. The capabilities of our workstation provides thus new valuable insights into the fundamental cellular and physical mechanisms underlying the regulation of bacterial signal transduction.

Rural Medicare Advantage Market Dynamics and Quality: Historical Context and Current Implications.

PubMed

Kemper, Leah; Barker, Abigail R; Wilber, Lyndsey; McBride, Timothy D; Mueller, Keith

2016-07-01

Purpose. In this policy brief, we assess variation in Medicare’s star quality ratings of Medicare Advantage (MA) plans that are available to rural beneficiaries. Evidence from the recent Centers for Medicare & Medicaid Services (CMS) quality demonstration suggests that market dynamics, i.e., firms entering and exiting the MA marketplace, play a role in quality improvement. Therefore, we also discuss how market dynamics may impact the smaller and less wealthy populations that are characteristic of rural places. Key Data Findings. (1) Highly rated MA plans serving rural Medicare beneficiaries are more likely to be health maintenance organizations (HMOs) and local preferred provider organizations (PPOs), as opposed to regional PPOs. HMOs and local PPOs may be better able to improve their quality scores strategically in response to the bonus payment incentive due to existing internal monitoring mechanisms. (2) On average, the rural enrollment rate is lower in plans with higher quality scores (59 percent) than the corresponding urban rate (71 percent). This differential is likely due, in part, to lack of availability of highly rated plans in rural areas: 17.8 percent of rural counties lacked access to a plan with four or more (out of five) stars, while just 3.7 percent of urban counties lacked such access. (3) MA plans with high quality scores have been operating longer, on average, and have a lower percentage of rural counties within their contract service areas than plans with lower quality scores.

High Temporal Resolution Characterization of the Carbonate Chemistry and the Relative Influence of Community Metabolic Processes on Controlling Coral Reef Dynamics at La Parguera, Puerto Rico

NASA Astrophysics Data System (ADS)

Melendez, M.; Salisbury, J.; Gledhill, D. K.; Musielewicz, S.; Morell, J. M.; Manzello, D.

2016-02-01

Diverse metabolic processes in conjunction with thermodynamic, physical and benthic related processes modulate seawater carbonate chemistry in near-shore environments. Such processes operate at different time scales. In the open ocean, dynamics and trends in carbonate chemistry are reasonably well constrained and often characterized based on TA-salinity and pCO2-temperature relationships. However, in near-shore environments benthic and coastal processes can convolute these relationships and careful direct measurement of the carbonate system (e.g. through alkalinity and dissolved inorganic carbon) is needed. To this end, we characterized seasonal and inter-annual carbonate dynamics from 2009 to 2014 at the Class III fixed climate station of La Parguera Marine Reserve, Puerto Rico. This high-temporal resolution chemical monitoring at Enrique reef facilitated an examination of what local processes might prove dominant, and how changes in community-scale metabolic performance might alter the dynamics of the carbonate system within the near-shore reef waters. Changes in pCO2,sw at Enrique reef are strongly associated with both community inorganic and organic carbon production processes. Enrique reef is a persistent source of CO2 to the atmosphere (1.8 mmol CO2 m-2 d-1, SE = 0.04) with at maximum peak during the summer and fall seasons. During the same time, carbonate mineral saturation state are generally lower along the fore-reef relative to offshore waters and dominantly controlled by short-term pCO2,sw dynamics primarily driven by benthic community organic matter productivity, temperature and salinity seasonal changes. At this time, high temperatures coincide with intense local rainfall and the influx of the low-salinity Amazon and Orinoco River plumes into the eastern Caribbean. One benefit of such measurements is that they provide data for a more accurate determination of TA-salinity relationships for our region and site-specific algorithms for first order derivations of other carbonate system parameters.

Effect of alcohols on the structure and dynamics of [BMIM][PF6] ionic liquid: A combined molecular dynamics simulation and Voronoi tessellation investigation

NASA Astrophysics Data System (ADS)

Sharma, Anirban; Ghorai, Pradip Kr.

2018-05-01

The solubility of 1-butyl-3-methylimidazolium hexafluorophosphate ([BMIM][PF6]) ionic liquid (IL) in water is much less, whereas it is highly soluble in alcohol. The composition dependent structural and dynamical properties of [BMIM][PF6] in methanol and ethanol have been investigated by using all-atom molecular dynamics simulation. Though the density of IL/alcohol binary mixtures is nearly identical for different alcohol mole fractions, we observe the unalike structural and dynamical properties of the IL in methanol and ethanol due to different local environments of the IL and polarity of the solvent. Voronoi polyhedral analysis exhibits strong dependence of local environments on alcohol concentrations. Void and neck distribution in Voronoi tessellation are approximately Gaussian for pure IL, but it deviates from the Gaussian behavior at very high alcohol concentration. At low alcohol concentration, void and neck distributions of [BMIM]+ with [PF6]- in both methanol and ethanol are almost identical, whereas the distributions in ethanol are broader with lesser intensity than in methanol at high alcohol concentration. This suggests the existence of a very few larger free space in ethanol than in methanol. Although peak positions in the void and neck distributions in ethanol are at larger void and neck radius than in methanol, peak intensity for medium sized void in methanol is significantly higher than in ethanol. Thus the translational motion of both [BMIM]+ and [PF6]- and the rotational motion of [BMIM]+ are faster in methanol than in ethanol. Hydrogen bonding of [BMIM]+ with [PF6]- is more predominate than the alcohols, hence cation-anion hydrogen bonding plays an important role in determining self-diffusion coefficient (D) of [BMIM]+, whereas for [PF6]-, cooperative motion due to hydrogen bonding with the alcohols is indispensable.

Deconstructing spatiotemporal chaos using local symbolic dynamics.

PubMed

Pethel, Shawn D; Corron, Ned J; Bollt, Erik

2007-11-23

We find that the global symbolic dynamics of a diffusively coupled map lattice is well approximated by a very small local model for weak to moderate coupling strengths. A local symbolic model is a truncation of the full symbolic model to one that considers only a single element and a few neighbors. Using interval analysis, we give rigorous results for a range of coupling strengths and different local model widths. Examples are presented of extracting a local symbolic model from data and of controlling spatiotemporal chaos.

Local Turbulence Suppression and Shear Flow Dynamics During qmin-Triggered Internal Transport Barriers on DIII-D

NASA Astrophysics Data System (ADS)

Shafer, M. W.; McKee, G. R.; Schlossberg, D. J.; Austin, M. E.; Burrell, K. H.

2008-11-01

Long-wavelength turbulence (kρi< 1) is locally suppressed simultaneously with a rapid but transient increase in local poloidal flow shear at the appearance of low-order rational qmin surfaces in negative central shear discharges. At these events, reductions in energy transport are observed and Internal Transport Barriers (ITBs) may form. Application of off-axis ECH slows the q-profile evolution and increases ρqmin, both of which enhance turbulence measurements using a new high-sensitivity large-area (8x,8) 2D BES array. The measured transient turbulence suppression is localized to the low-order rational surface (qmin= 2, 5/2, 3, etc.). Measured poloidal flow shear transiently exceeds the turbulence decorrelation rate, which is consistent with shear suppression. The localized suppression zone propagates radially outward, nearly coincident with the low-order surface.

Under the Microscope: Single-Domain Antibodies for Live-Cell Imaging and Super-Resolution Microscopy.

PubMed

Traenkle, Bjoern; Rothbauer, Ulrich

2017-01-01

Single-domain antibodies (sdAbs) have substantially expanded the possibilities of advanced cellular imaging such as live-cell or super-resolution microscopy to visualize cellular antigens and their dynamics. In addition to their unique properties including small size, high stability, and solubility in many environments, sdAbs can be efficiently functionalized according to the needs of the respective imaging approach. Genetically encoded intrabodies fused to fluorescent proteins (chromobodies) have become versatile tools to study dynamics of endogenous proteins in living cells. Additionally, sdAbs conjugated to organic dyes were shown to label cellular structures with high density and minimal fluorophore displacement making them highly attractive probes for super-resolution microscopy. Here, we review recent advances of the chromobody technology to visualize localization and dynamics of cellular targets and the application of chromobody-based cell models for compound screening. Acknowledging the emerging importance of super-resolution microscopy in cell biology, we further discuss advantages and challenges of sdAbs for this technology.

Spitzenkorper, exocyst, and polarisome components in Candida albicans hyphae show different patterns of localization and have distinct dynamic properties.

PubMed

Jones, Laura A; Sudbery, Peter E

2010-10-01

During the extreme polarized growth of fungal hyphae, secretory vesicles are thought to accumulate in a subapical region called the Spitzenkörper. The human fungal pathogen Candida albicans can grow in a budding yeast or hyphal form. When it grows as hyphae, Mlc1 accumulates in a subapical spot suggestive of a Spitzenkörper-like structure, while the polarisome components Spa2 and Bud6 localize to a surface crescent. Here we show that the vesicle-associated protein Sec4 also localizes to a spot, confirming that secretory vesicles accumulate in the putative C. albicans Spitzenkörper. In contrast, exocyst components localize to a surface crescent. Using a combination of fluorescence recovery after photobleaching (FRAP) and fluorescence loss in photobleaching (FLIP) experiments and cytochalasin A to disrupt actin cables, we showed that Spitzenkörper-located proteins are highly dynamic. In contrast, exocyst and polarisome components are stably located at the cell surface. It is thought that in Saccharomyces cerevisiae exocyst components are transported to the cell surface on secretory vesicles along actin cables. If each vesicle carried its own complement of exocyst components, then it would be expected that exocyst components would be as dynamic as Sec4 and would have the same pattern of localization. This is not what we observe in C. albicans. We propose a model in which a stream of vesicles arrives at the tip and accumulates in the Spitzenkörper before onward delivery to the plasma membrane mediated by exocyst and polarisome components that are more stable residents of the cell surface.

LOCAL TADPOLE GALAXIES: DYNAMICS AND METALLICITY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sanchez Almeida, J.; Munoz-Tunon, C.; Mendez-Abreu, J.

2013-04-10

Tadpole galaxies, with a bright peripheral clump on a faint tail, are morphological types unusual in the nearby universe but very common early on. Low mass local tadpoles were identified and studied photometrically in a previous work, which we complete here analyzing their chemical and dynamical properties. We measure H{alpha} velocity curves of seven local tadpoles, representing 50% of the initial sample. Five of them show evidence for rotation ({approx}70%), and a sixth target hints at it. Often the center of rotation is spatially offset with respect to the tadpole head (three out of five cases). The size and velocitymore » dispersion of the heads are typical of giant H II regions, and three of them yield dynamical masses in fair agreement with their stellar masses as inferred from photometry. In four cases the velocity dispersion at the head is reduced with respect to its immediate surroundings. The oxygen metallicity estimated from [N II] {lambda}6583/H{alpha} often shows significant spatial variations across the galaxies ({approx}0.5 dex), being smallest at the head and larger elsewhere. The resulting chemical abundance gradients are opposite to the ones observed in local spirals, but agrees with disk galaxies at high redshift. We interpret the metallicity variation as a sign of external gas accretion (cold-flows) onto the head of the tadpole. The galaxies are low-metallicity outliers of the mass-metallicity relationship. In particular, two of the tadpole heads are extremely metal poor, with a metallicity smaller than a tenth of the solar value. These two targets are also very young (ages smaller than 5 Myr). All these results combined are consistent with the local tadpole galaxies being disks in early stages of assembling, with their star formation sustained by accretion of external metal-poor gas.« less

Subsurface and terrain controls on runoff generation in deep soil landscapes

NASA Astrophysics Data System (ADS)

Mallard, John; McGlynn, Brian; Richter, Daniel

2017-04-01

Our understanding of runoff generation in regions characterized by deep, highly weathered soils is incomplete despite the prevalence of this setting worldwide. To address this, we instrumented a first-order watershed in the Piedmont of South Carolina, USA. The Piedmont region of the United States extends east of the Appalachians from Maryland to Alabama, and is home to some of the most rapid population growth in the country. Regional and local relief is modest, although the landscape is highly dissected and local slope can be quite variable. The region's soils are ancient, deeply weathered, and characterized by sharp changes in hydrologic properties due to concentration of clay in the Bt horizon. Despite a mild climate and consistent precipitation, seasonally variable energy availability and deciduous tree cover create a strong evapotranspiration mediated seasonal hydrologic dynamic: while moist soils and extended stream networks are typical of the late fall through spring, relatively dry soils and contracting stream networks emerge in the summer and early fall. To elucidate the control of the complex vertical and planform structure of this region, as well as the strongly seasonal subsurface hydrology, on runoff generation, we installed a network of nested, shallow groundwater wells across an ephemeral to first-order watershed to continuously measure internal water levels. We also recorded local precipitation and discharge at the outlet of this watershed, a similar adjacent watershed, and in the second to third order downstream watershed. Subsurface water dynamics varied spatially, vertically, and seasonally. Shallow depths and landscape positions with minimal contributing area exhibited flashier dynamics comparable to the stream hydrographs while positions with more contributing area exhibited relatively muted dynamics. Most well positions showed minimal response to precipitation throughout the summer, and even occasionally observed response rarely co-occurred with streamflow generation. Our initial findings suggest that characterizing the terrain of a watershed must be coupled with the subsurface soil hydrology in order to understand spatiotemporal patterns of streamflow generation in regions possessing both complex vertical structure and terrain.

[Respiratory symptoms associated with air pollution in five localities of Bogotá, 2008-2011, a dynamic cohort study].

PubMed

Sarmiento, Rodrigo; Hernández, Luis Jorge; Medina, Edna Katalina; Rodríguez, Natalia; Reyes, Jesús

2015-08-01

High levels of air pollution increase respiratory morbidity in children under five years of age. To know the incidence of respiratory symptoms and its associated factors in five localities of Bogota. A dynamic cohort study was undertaken with a sample size of 3,278 children from five localities split into two groups according to the degree of exposure to particulate matter. Monitoring was conducted at the outbreak of ten respiratory symptoms through a diary of those symptoms. Statistical analysis included incidence rate ratio (IRR) calculations and Poisson regression models for each assessed symptom. Cough was more frequent in the highly exposed group (lRR=1.23, Cl 95% 1.13-1.34). The most exposed group had higher incidence of expectoration (lRR=1.64, Cl= 95% 1.47-1.84). Wheezing was associated with high exposure to particulate matter (RR=2.29, Cl 95% 1.78-3.00), cottage industries (RR=1.29, Cl 95% 1.01-1.68) and age (RR=0.95, Cl 95% 0.94-0.96). Risk attributable to air pollution exposure fluctuated according to symptoms from 37% for nocturnal wheezing (Cl 95% 26-47.8) to 10.6 for cough (Cl 95% 6.3-15%). Extradomiciliary air pollution effects are potentiated by socioeconomic living and working conditions of people in Bogota. A broader conceptual public health approach and the strengthening of intersector actions are required to reduce health effects of air pollution.

Predictions of High Strain Rate Failure Modes in Layered Aluminum Composites

NASA Astrophysics Data System (ADS)

Khanikar, Prasenjit; Zikry, M. A.

2014-01-01

A dislocation density-based crystalline plasticity formulation, specialized finite-element techniques, and rational crystallographic orientation relations were used to predict and characterize the failure modes associated with the high strain rate behavior of aluminum layered composites. Two alloy layers, a high strength alloy, aluminum 2195, and an aluminum alloy 2139, with high toughness, were modeled with representative microstructures that included precipitates, dispersed particles, and different grain boundary distributions. Different layer arrangements were investigated for high strain rate applications and the optimal arrangement was with the high toughness 2139 layer on the bottom, which provided extensive shear strain localization, and the high strength 2195 layer on the top for high strength resistance The layer thickness of the bottom high toughness layer also affected the bending behavior of the roll-bonded interface and the potential delamination of the layers. Shear strain localization, dynamic cracking, and delamination are the mutually competing failure mechanisms for the layered metallic composite, and control of these failure modes can be used to optimize behavior for high strain rate applications.

Phase field crystal simulation of stress induced localized solid-state amorphization in nanocrystalline materials

NASA Astrophysics Data System (ADS)

Xi, Wen; Song, Xiaoqing; Hu, Shi; Chen, Zheng

2017-11-01

In this work, the phase field crystal (PFC) method is used to study the localized solid-state amorphization (SSA) and its dynamic transformation process in polycrystalline materials under the uniaxial tensile deformation with different factors. The impacts of these factors, including strain rates, temperatures and grain sizes, are analyzed. Kinetically, the ultra-high strain rate causes the lattice to be seriously distorted and the grain to gradually collapse, so the dislocation density rises remarkably. Therefore, localized SSA occurs. Thermodynamically, as high temperature increases the activation energy, the atoms are active and prefer to leave the original position, which induce atom rearrangement. Furthermore, small grain size increases the percentage of grain boundary and the interface free energy of the system. As a result, Helmholtz free energy increases. The dislocations and Helmholtz free energy act as the seed and driving force for the process of the localized SSA. Also, the critical diffusion-time step and the percentage of amorphous region areas are calculated. Through this work, the PFC method is proved to be an effective means to study localized SSA under uniaxial tensile deformation.

Phase field crystal simulation of stress induced localized solid-state amorphization in nanocrystalline materials.

PubMed

Xi, Wen; Song, Xiaoqing; Hu, Shi; Chen, Zheng

2017-11-29

In this work, the phase field crystal (PFC) method is used to study the localized solid-state amorphization (SSA) and its dynamic transformation process in polycrystalline materials under the uniaxial tensile deformation with different factors. The impacts of these factors, including strain rates, temperatures and grain sizes, are analyzed. Kinetically, the ultra-high strain rate causes the lattice to be seriously distorted and the grain to gradually collapse, so the dislocation density rises remarkably. Therefore, localized SSA occurs. Thermodynamically, as high temperature increases the activation energy, the atoms are active and prefer to leave the original position, which induce atom rearrangement. Furthermore, small grain size increases the percentage of grain boundary and the interface free energy of the system. As a result, Helmholtz free energy increases. The dislocations and Helmholtz free energy act as the seed and driving force for the process of the localized SSA. Also, the critical diffusion-time step and the percentage of amorphous region areas are calculated. Through this work, the PFC method is proved to be an effective means to study localized SSA under uniaxial tensile deformation.

Glass polymorphism in amorphous germanium probed by first-principles computer simulations

NASA Astrophysics Data System (ADS)

Mancini, G.; Celino, M.; Iesari, F.; Di Cicco, A.

2016-01-01

The low-density (LDA) to high-density (HDA) transformation in amorphous Ge at high pressure is studied by first-principles molecular dynamics simulations in the framework of density functional theory. Previous experiments are accurately reproduced, including the presence of a well-defined LDA-HDA transition above 8 GPa. The LDA-HDA density increase is found to be about 14%. Pair and bond-angle distributions are obtained in the 0-16 GPa pressure range and allowed us a detailed analysis of the transition. The local fourfold coordination is transformed in an average HDA sixfold coordination associated with different local geometries as confirmed by coordination number analysis and shape of the bond-angle distributions.

Filter methods to preserve local contrast and to avoid artifacts in gamut mapping

NASA Astrophysics Data System (ADS)

Meili, Marcel; Küpper, Dennis; Barańczuk, Zofia; Caluori, Ursina; Simon, Klaus

2010-01-01

Contrary to high dynamic range imaging, the preservation of details and the avoidance of artifacts is not explicitly considered in popular color management systems. An effective way to overcome these difficulties is image filtering. In this paper we investigate several image filter concepts for detail preservation as part of a practical gamut mapping strategy. In particular we define four concepts including various image filters and check their performance with a psycho-visual test. Additionally, we compare our performance evaluation to two image quality measures with emphasis on local contrast. Surprisingly, the most simple filter concept performs highly efficient and achieves an image quality which is comparable to the more established but slower methods.

Predicting non-linear dynamics by stable local learning in a recurrent spiking neural network.

PubMed

Gilra, Aditya; Gerstner, Wulfram

2017-11-27

The brain needs to predict how the body reacts to motor commands, but how a network of spiking neurons can learn non-linear body dynamics using local, online and stable learning rules is unclear. Here, we present a supervised learning scheme for the feedforward and recurrent connections in a network of heterogeneous spiking neurons. The error in the output is fed back through fixed random connections with a negative gain, causing the network to follow the desired dynamics. The rule for Feedback-based Online Local Learning Of Weights (FOLLOW) is local in the sense that weight changes depend on the presynaptic activity and the error signal projected onto the postsynaptic neuron. We provide examples of learning linear, non-linear and chaotic dynamics, as well as the dynamics of a two-link arm. Under reasonable approximations, we show, using the Lyapunov method, that FOLLOW learning is uniformly stable, with the error going to zero asymptotically.

Predicting non-linear dynamics by stable local learning in a recurrent spiking neural network

PubMed Central

Gerstner, Wulfram

2017-01-01

The brain needs to predict how the body reacts to motor commands, but how a network of spiking neurons can learn non-linear body dynamics using local, online and stable learning rules is unclear. Here, we present a supervised learning scheme for the feedforward and recurrent connections in a network of heterogeneous spiking neurons. The error in the output is fed back through fixed random connections with a negative gain, causing the network to follow the desired dynamics. The rule for Feedback-based Online Local Learning Of Weights (FOLLOW) is local in the sense that weight changes depend on the presynaptic activity and the error signal projected onto the postsynaptic neuron. We provide examples of learning linear, non-linear and chaotic dynamics, as well as the dynamics of a two-link arm. Under reasonable approximations, we show, using the Lyapunov method, that FOLLOW learning is uniformly stable, with the error going to zero asymptotically. PMID:29173280

Dynamic Hierarchical Sleep Scheduling for Wireless Ad-Hoc Sensor Networks

PubMed Central

Wen, Chih-Yu; Chen, Ying-Chih

2009-01-01

This paper presents two scheduling management schemes for wireless sensor networks, which manage the sensors by utilizing the hierarchical network structure and allocate network resources efficiently. A local criterion is used to simultaneously establish the sensing coverage and connectivity such that dynamic cluster-based sleep scheduling can be achieved. The proposed schemes are simulated and analyzed to abstract the network behaviors in a number of settings. The experimental results show that the proposed algorithms provide efficient network power control and can achieve high scalability in wireless sensor networks. PMID:22412343

Dynamic hierarchical sleep scheduling for wireless ad-hoc sensor networks.

PubMed

Wen, Chih-Yu; Chen, Ying-Chih

2009-01-01

This paper presents two scheduling management schemes for wireless sensor networks, which manage the sensors by utilizing the hierarchical network structure and allocate network resources efficiently. A local criterion is used to simultaneously establish the sensing coverage and connectivity such that dynamic cluster-based sleep scheduling can be achieved. The proposed schemes are simulated and analyzed to abstract the network behaviors in a number of settings. The experimental results show that the proposed algorithms provide efficient network power control and can achieve high scalability in wireless sensor networks.

Long range dynamic effects of point-mutations trap a response regulator in an active conformation

PubMed Central

Bobay, Benjamin G.; Thompson, Richele J.; Hoch, James A.; Cavanagh, John

2010-01-01

When a point-mutation in a protein elicits a functional change, it is most common to assign this change to local structural perturbations. Here we show that point-mutations, distant from an essential highly dynamic kinase recognition loop in the response regulator Spo0F, lock this loop in an active conformation. This ‘conformational trapping’ results in functionally hyperactive Spo0F. Consequently, point-mutations are seen to affect functionally critical motions both close to and far from the mutational site. PMID:20828564

Polarized-neutron study of spin dynamics in the Kondo insulator YbB12.

PubMed

Nemkovski, K S; Mignot, J-M; Alekseev, P A; Ivanov, A S; Nefeodova, E V; Rybina, A V; Regnault, L-P; Iga, F; Takabatake, T

2007-09-28

Inelastic neutron scattering experiments have been performed on the archetype compound YbB(12), using neutron polarization analysis to separate the magnetic signal from the phonon background. With decreasing temperature, components characteristic for a single-site spin-fluctuation dynamics are suppressed, giving place to specific, strongly Q-dependent, low-energy excitations near the spin-gap edge. This crossover is discussed in terms of a simple crystal-field description of the incoherent high-temperature state and a predominantly local mechanism for the formation of the low-temperature singlet ground state.

Making Sense of Dynamic Systems: How Our Understanding of Stocks and Flows Depends on a Global Perspective.

PubMed

Fischer, Helen; Gonzalez, Cleotilde

2016-03-01

Stocks and flows (SF) are building blocks of dynamic systems: Stocks change through inflows and outflows, such as our bank balance changing with withdrawals and deposits, or atmospheric CO2 with absorptions and emissions. However, people make systematic errors when trying to infer the behavior of dynamic systems, termed SF failure, whose cognitive explanations are yet unknown. We argue that SF failure appears when people focus on specific system elements (local processing), rather than on the system structure and gestalt (global processing). Using a standard SF task (n = 148), SF failure decreased by (a) a global as opposed to local task format; (b) individual global as opposed to local processing styles; and (c) global as opposed to local perceptual priming. These results converge toward local processing as an explanation for SF failure. We discuss theoretical and practical implications on the connections between the scope of attention and understanding of dynamic systems. Copyright © 2015 Cognitive Science Society, Inc.

Untangling Brain-Wide Dynamics in Consciousness by Cross-Embedding

PubMed Central

Tajima, Satohiro; Yanagawa, Toru; Fujii, Naotaka; Toyoizumi, Taro

2015-01-01

Brain-wide interactions generating complex neural dynamics are considered crucial for emergent cognitive functions. However, the irreducible nature of nonlinear and high-dimensional dynamical interactions challenges conventional reductionist approaches. We introduce a model-free method, based on embedding theorems in nonlinear state-space reconstruction, that permits a simultaneous characterization of complexity in local dynamics, directed interactions between brain areas, and how the complexity is produced by the interactions. We demonstrate this method in large-scale electrophysiological recordings from awake and anesthetized monkeys. The cross-embedding method captures structured interaction underlying cortex-wide dynamics that may be missed by conventional correlation-based analysis, demonstrating a critical role of time-series analysis in characterizing brain state. The method reveals a consciousness-related hierarchy of cortical areas, where dynamical complexity increases along with cross-area information flow. These findings demonstrate the advantages of the cross-embedding method in deciphering large-scale and heterogeneous neuronal systems, suggesting a crucial contribution by sensory-frontoparietal interactions to the emergence of complex brain dynamics during consciousness. PMID:26584045

Large eddy simulation of spanwise rotating turbulent channel flow with dynamic variants of eddy viscosity model

NASA Astrophysics Data System (ADS)

Jiang, Zhou; Xia, Zhenhua; Shi, Yipeng; Chen, Shiyi

2018-04-01

A fully developed spanwise rotating turbulent channel flow has been numerically investigated utilizing large-eddy simulation. Our focus is to assess the performances of the dynamic variants of eddy viscosity models, including dynamic Vreman's model (DVM), dynamic wall adapting local eddy viscosity (DWALE) model, dynamic σ (Dσ ) model, and the dynamic volumetric strain-stretching (DVSS) model, in this canonical flow. The results with dynamic Smagorinsky model (DSM) and direct numerical simulations (DNS) are used as references. Our results show that the DVM has a wrong asymptotic behavior in the near wall region, while the other three models can correctly predict it. In the high rotation case, the DWALE can get reliable mean velocity profile, but the turbulence intensities in the wall-normal and spanwise directions show clear deviations from DNS data. DVSS exhibits poor predictions on both the mean velocity profile and turbulence intensities. In all three cases, Dσ performs the best.

Cyclic Ductile-Brittle Deformation during Temperature Decrease in Quartz-Rich Mylonites: Insights from the Calamita Schists (Elba Island, Italy)

NASA Astrophysics Data System (ADS)

Papeschi, S.; Menegon, L. M.; Musumeci, G.

2017-12-01

The Calamita Schists are a metamorphic complex that experienced transient (< 1 Ma) upper Miocene HT/LP metamorphism related to the emplacement of the Porto Azzurro pluton at P<0.2 GPa. HT/LP metamorphism was coeval with regional scale contractional tectonics leading to the development of meter to decameter ductile east-verging high-strain domains marked by mylonitic fabric overprinted by non-Andersonian brittle faults. In order to investigate the switch in deformation mechanism during temperature decrease at constant pressure (P<0.2 GPa), a sample of mylonitic quartzite with S-C' fabric was examined by Electron Backscatter Diffraction (EBSD), optical microscopy and Scanning Electron Microscope (SEM). Mylonitic fabric is marked by synkinematic biotite + cordierite + andalusite + K-feldspar assemblage, which is progressively replaced by retrograde white mica + chlorite. Quartz microfabric is defined by coarse-grained (100-900 µm) quartz porphyroclasts wrapped by ribbons of dynamically recrystallized finer grains ( 50 µm) showing a strong CPO. This fabric is cross cut by conjugate and synthetic C'-shear bands localized in porphyroclasts and marked by recrystallized fine grains (5-50 µm). EBSD data indicate that prism was the dominant slip system during crystal plastic deformation and dynamic recrystallization in the polycrystalline ribbons. Subsequently, brittle deformation localized along intracrystalline bands (both in conjugate sets and parallel to C' shear bands) within quartz porphyroclasts. The bands evolved in localized cataclastic micro-shear zones and in shear fractures, which localized fluid infiltration and healing by solution precipitation. The quartz new grains filling the bands are preferentially oriented with their c-axis parallel to the shear band boundary. This work highlights that deformation in the Calamita Schists switched over time from high-temperature dynamic recrystallization, accommodated by prism slip to low grade brittle-ductile processes. At the brittle-ductile transition strain partitioning was controlled by grain size and fluid penetration and was characterized by cyclical ductile-brittle mechanisms. In particular brittle failure localized in coarse-grains acted as the precursor for ductile C' shear bands.

Eco-evolutionary spatial dynamics in the Glanville fritillary butterfly.

PubMed

Hanski, Ilkka A

2011-08-30

Demographic population dynamics, gene flow, and local adaptation may influence each other and lead to coupling of ecological and evolutionary dynamics, especially in species inhabiting fragmented heterogeneous environments. Here, I review long-term research on eco-evolutionary spatial dynamics in the Glanville fritillary butterfly inhabiting a large network of approximately 4,000 meadows in Finland. The metapopulation persists in a balance between frequent local extinctions and recolonizations. The genetic spatial structure as defined by neutral markers is much more coarse-grained than the demographic spatial structure determined by the fragmented habitat, yet small-scale spatial structure has important consequences for the dynamics. I discuss three examples of eco-evolutionary spatial dynamics. (i) Extinction-colonization metapopulation dynamics influence allele frequency changes in the phosphoglucose isomerase (Pgi) gene, which leads to strong associations between genetic variation in Pgi and dispersal, recolonization, and local population dynamics. (ii) Inbreeding in local populations increases their risk for extinction, whereas reciprocal effects between inbreeding, population size, and emigration represent likely eco-evolutionary feedbacks. (iii) Genetically determined female oviposition preference for two host plant species exhibits a cline paralleling a gradient in host plant relative abundances, and host plant preference of dispersing females in relation to the host plant composition of habitat patches influences immigration (gene flow) and recolonization (founder events). Eco-evolutionary spatial dynamics in heterogeneous environments may not lead to directional evolutionary changes unless the environment itself changes, but eco-evolutionary dynamics may contribute to the maintenance of genetic variation attributable to fluctuating selection in space and time.

Localized multi-scale energy and vorticity analysis. II. Finite-amplitude instability theory and validation

NASA Astrophysics Data System (ADS)

San Liang, X.; Robinson, Allan R.

2007-12-01

A novel localized finite-amplitude hydrodynamic stability analysis is established in a unified treatment for the study of real oceanic and atmospheric processes, which are in general highly nonlinear, and intermittent in space and time. We first re-state the classical definition using the multi-scale energy and vorticity analysis (MS-EVA) developed in Liang and Robinson [Liang, X.S., Robinson, A.R., 2005. Localized multiscale energy and vorticity analysis. I. Fundamentals. Dyn. Atmos. Oceans 38, 195-230], and then manipulate certain global operators to achieve the temporal and spatial localization. The key of the spatial localization is transfer-transport separation, which is made precise with the concept of perfect transfer, while relaxation of marginalization leads to the localization of time. In doing so the information of transfer lost in the averages is retrieved and an easy-to-use instability metric is obtained. The resulting metric is field-like (Eulerian), conceptually generalizing the classical formalism, a bulk notion over the whole system. In this framework, an instability has a structure, which is of particular use for open flow processes. We check the structure of baroclinic instability with the benchmark Eady model solution, and the Iceland-Faeroe Frontal (IFF) intrusion, a highly localized and nonlinear process occurring frequently in the region between Iceland and Faeroe Islands. A clear isolated baroclinic instability is identified around the intrusion, which is further found to be characterized by the transition from a spatially growing mode to a temporally growing mode. We also check the consistency of the MS-EVA dynamics with the barotropic Kuo model. An observation is that a local perturbation burst does not necessarily imply an instability: the perturbation energy could be transported from other processes occurring elsewhere. We find that our analysis yields a Kuo theorem-consistent mean-eddy interaction, which is not seen in a conventional Reynolds stress framework. Using the techniques of marginalization and localization, this work sets up an example for the generalization of certain geophysical fluid dynamics theories for more generic purposes.

AdapChem

NASA Technical Reports Server (NTRS)

Oluwole, Oluwayemisi O.; Wong, Hsi-Wu; Green, William

2012-01-01

AdapChem software enables high efficiency, low computational cost, and enhanced accuracy on computational fluid dynamics (CFD) numerical simulations used for combustion studies. The software dynamically allocates smaller, reduced chemical models instead of the larger, full chemistry models to evolve the calculation while ensuring the same accuracy to be obtained for steady-state CFD reacting flow simulations. The software enables detailed chemical kinetic modeling in combustion CFD simulations. AdapChem adapts the reaction mechanism used in the CFD to the local reaction conditions. Instead of a single, comprehensive reaction mechanism throughout the computation, a dynamic distribution of smaller, reduced models is used to capture accurately the chemical kinetics at a fraction of the cost of the traditional single-mechanism approach.

From homeostasis to behavior: Balanced activity in an exploration of embodied dynamic environmental-neural interaction.

PubMed

Hellyer, Peter John; Clopath, Claudia; Kehagia, Angie A; Turkheimer, Federico E; Leech, Robert

2017-08-01

In recent years, there have been many computational simulations of spontaneous neural dynamics. Here, we describe a simple model of spontaneous neural dynamics that controls an agent moving in a simple virtual environment. These dynamics generate interesting brain-environment feedback interactions that rapidly destabilize neural and behavioral dynamics demonstrating the need for homeostatic mechanisms. We investigate roles for homeostatic plasticity both locally (local inhibition adjusting to balance excitatory input) as well as more globally (regional "task negative" activity that compensates for "task positive", sensory input in another region) balancing neural activity and leading to more stable behavior (trajectories through the environment). Our results suggest complementary functional roles for both local and macroscale mechanisms in maintaining neural and behavioral dynamics and a novel functional role for macroscopic "task-negative" patterns of activity (e.g., the default mode network).

Grade Point Averages: How Students Navigate the System

ERIC Educational Resources Information Center

Uribe, Patricia E.; Garcia, Marco A.

2012-01-01

This case exemplifies the unintended divisive cause and effect dynamic that can occur as a direct result of a seemingly innocuous school board policy modification. A change in school board policy at a local school district in Laredo, Texas, was designed to facilitate the fulfillment of a foreign language requirement for high school students. A…

The method of parallel-hierarchical transformation for rapid recognition of dynamic images using GPGPU technology

NASA Astrophysics Data System (ADS)

Timchenko, Leonid; Yarovyi, Andrii; Kokriatskaya, Nataliya; Nakonechna, Svitlana; Abramenko, Ludmila; Ławicki, Tomasz; Popiel, Piotr; Yesmakhanova, Laura

2016-09-01

The paper presents a method of parallel-hierarchical transformations for rapid recognition of dynamic images using GPU technology. Direct parallel-hierarchical transformations based on cluster CPU-and GPU-oriented hardware platform. Mathematic models of training of the parallel hierarchical (PH) network for the transformation are developed, as well as a training method of the PH network for recognition of dynamic images. This research is most topical for problems on organizing high-performance computations of super large arrays of information designed to implement multi-stage sensing and processing as well as compaction and recognition of data in the informational structures and computer devices. This method has such advantages as high performance through the use of recent advances in parallelization, possibility to work with images of ultra dimension, ease of scaling in case of changing the number of nodes in the cluster, auto scan of local network to detect compute nodes.

High-resolution modelling of waves, currents and sediment transport in the Catalan Sea.

NASA Astrophysics Data System (ADS)

Sánchez-Arcilla, Agustín; Grifoll, Manel; Pallares, Elena; Espino, Manuel

2013-04-01

In order to investigate coastal shelf dynamics, a sequence of high resolution multi-scale models have been implemented for the Catalan shelf (North-western Mediterranean Sea). The suite consists of a set of increasing-resolution nested models, based on the circulation model ROMS (Regional Ocean Modelling System), the wave model SWAN (Simulation Waves Nearshore) and the sediment transport model CSTM (Community Sediment Transport Model), covering different ranges of spatial (from ~1 km at shelf-slope regions to ~40 m around river mouth or local beaches) and temporal scales (from storms events to seasonal variability). Contributions in the understanding of local processes such as along-shelf dynamics in the inner-shelf, sediment dispersal from the river discharge or bi-directional wave-current interactions under different synoptic conditions and resolution have been obtained using the Catalan Coast as a pilot site. Numerical results have been compared with "ad-hoc" intensive field campaigns, data from observational models and remote sensing products. The results exhibit acceptable agreement with observations and the investigation has allowed developing generic knowledge and more efficient (process-based) strategies for the coastal and shelf management.

Reflection type metasurface designed for high efficiency vectorial field generation

NASA Astrophysics Data System (ADS)

Wang, Shiyi; Zhan, Qiwen

2016-07-01

We propose a reflection type metal-insulator-metal (MIM) metasurface composed of hybrid nano-antennas for comprehensive spatial engineering of the properties of optical fields. The capability of such structure is illustrated in the design of a device that can be used to produce a radially polarized vectorial beam for optical needle field generation. This device consists of uniformly segmented sectors of high efficiency MIM metasurface. With each of the segment sector functioning as a local quarter-wave-plate (QWP), the device is designed to convert circularly polarized incidence into local linear polarization to create an overall radial polarization with corresponding binary phases and extremely high dynamic range amplitude modulation. The capability of such devices enables the generation of nearly arbitrarily complex optical fields that may find broad applications that transcend disciplinary boundaries.

Kolmogorov Turbulence Defeated by Anderson Localization for a Bose-Einstein Condensate in a Sinai-Oscillator Trap

NASA Astrophysics Data System (ADS)

Ermann, Leonardo; Vergini, Eduardo; Shepelyansky, Dima L.

2017-08-01

We study the dynamics of a Bose-Einstein condensate in a Sinai-oscillator trap under a monochromatic driving force. Such a trap is formed by a harmonic potential and a repulsive disk located in the center vicinity corresponding to the first experiments of condensate formation by Ketterle and co-workers in 1995. We allow that the external driving allows us to model the regime of weak wave turbulence with the Kolmogorov energy flow from low to high energies. We show that in a certain regime of weak driving and weak nonlinearity such a turbulent energy flow is defeated by the Anderson localization that leads to localization of energy on low energy modes. This is in a drastic contrast to the random phase approximation leading to energy flow to high modes. A critical threshold is determined above which the turbulent flow to high energies becomes possible. We argue that this phenomenon can be studied with ultracold atoms in magneto-optical traps.

Kolmogorov Turbulence Defeated by Anderson Localization for a Bose-Einstein Condensate in a Sinai-Oscillator Trap.

PubMed

Ermann, Leonardo; Vergini, Eduardo; Shepelyansky, Dima L

2017-08-04

We study the dynamics of a Bose-Einstein condensate in a Sinai-oscillator trap under a monochromatic driving force. Such a trap is formed by a harmonic potential and a repulsive disk located in the center vicinity corresponding to the first experiments of condensate formation by Ketterle and co-workers in 1995. We allow that the external driving allows us to model the regime of weak wave turbulence with the Kolmogorov energy flow from low to high energies. We show that in a certain regime of weak driving and weak nonlinearity such a turbulent energy flow is defeated by the Anderson localization that leads to localization of energy on low energy modes. This is in a drastic contrast to the random phase approximation leading to energy flow to high modes. A critical threshold is determined above which the turbulent flow to high energies becomes possible. We argue that this phenomenon can be studied with ultracold atoms in magneto-optical traps.

Quantum Chemical Study of Rare Gas/Halide Interactions as a Model for High Energy Density Material. 1. Transition Properties in HC1

DTIC Science & Technology

1994-11-01

separation of a stable, negatively charged exciplex such as (ClXe2)- and a self- trapped positive hole (STi) localized on a Xe+ (n = 2-3) molecule. The first...solid to form Xe + HO + 2hv -- Xe÷ (HCI)-, which quickly reacts with another Xe atom to form the more stable tri-atomic exciplex X407. This exciplex ...Transfer Reaction Dynamics in Rare Gas Solids. I. Photodynamics of Localized Xenon Chloride Exciplexes ." Journal of Chemical Physics. vol. 85, p. 5660

Electronically controllable spoof localized surface plasmons

NASA Astrophysics Data System (ADS)

Zhou, Yong Jin; Zhang, Chao; Yang, Liu; Xun Xiao, Qian

2017-10-01

Electronically controllable multipolar spoof localized surface plasmons (LSPs) are experimentally demonstrated in the microwave frequencies. It has been shown that half integer order LSPs modes exist on the corrugated ring loaded with a slit, which actually arise from the Fabry-Perot-like resonances. By mounting active components across the slit in the corrugated rings, electronic switchability and tunability of spoof LSPs modes have been accomplished. Both simulated and measured results demonstrate efficient dynamic control of the spoof LSPs. These elements may form the basis of highly integrated programmable plasmonic circuits in microwave and terahertz regimes.

Instantaneous brain dynamics mapped to a continuous state space.

PubMed

Billings, Jacob C W; Medda, Alessio; Shakil, Sadia; Shen, Xiaohong; Kashyap, Amrit; Chen, Shiyang; Abbas, Anzar; Zhang, Xiaodi; Nezafati, Maysam; Pan, Wen-Ju; Berman, Gordon J; Keilholz, Shella D

2017-11-15

Measures of whole-brain activity, from techniques such as functional Magnetic Resonance Imaging, provide a means to observe the brain's dynamical operations. However, interpretation of whole-brain dynamics has been stymied by the inherently high-dimensional structure of brain activity. The present research addresses this challenge through a series of scale transformations in the spectral, spatial, and relational domains. Instantaneous multispectral dynamics are first developed from input data via a wavelet filter bank. Voxel-level signals are then projected onto a representative set of spatially independent components. The correlation distance over the instantaneous wavelet-ICA state vectors is a graph that may be embedded onto a lower-dimensional space to assist the interpretation of state-space dynamics. Applying this procedure to a large sample of resting-state and task-active data (acquired through the Human Connectome Project), we segment the empirical state space into a continuum of stimulus-dependent brain states. Upon observing the local neighborhood of brain-states adopted subsequent to each stimulus, we may conclude that resting brain activity includes brain states that are, at times, similar to those adopted during tasks, but that are at other times distinct from task-active brain states. As task-active brain states often populate a local neighborhood, back-projection of segments of the dynamical state space onto the brain's surface reveals the patterns of brain activity that support many experimentally-defined states. Copyright © 2017 Elsevier Inc. All rights reserved.

Collapse of an ecological network in Ancient Egypt

PubMed Central

Yeakel, Justin D.; Pires, Mathias M.; Rudolf, Lars; Koch, Paul L.; Guimarães, Paulo R.; Gross, Thilo

2014-01-01

The dynamics of ecosystem collapse are fundamental to determining how and why biological communities change through time, as well as the potential effects of extinctions on ecosystems. Here, we integrate depictions of mammals from Egyptian antiquity with direct lines of paleontological and archeological evidence to infer local extinctions and community dynamics over a 6,000-y span. The unprecedented temporal resolution of this dataset enables examination of how the tandem effects of human population growth and climate change can disrupt mammalian communities. We show that the extinctions of mammals in Egypt were nonrandom and that destabilizing changes in community composition coincided with abrupt aridification events and the attendant collapses of some complex societies. We also show that the roles of species in a community can change over time and that persistence is predicted by measures of species sensitivity, a function of local dynamic stability. To our knowledge, our study is the first high-resolution analysis of the ecological impacts of environmental change on predator–prey networks over millennial timescales and sheds light on the historical events that have shaped modern animal communities. PMID:25201967

Dynamic Shear Deformation and Failure of Ti-6Al-4V and Ti-5Al-5Mo-5V-1Cr-1Fe Alloys

PubMed Central

Chen, Pengwan

2018-01-01

To study the dynamic shear deformation and failure properties of Ti-6Al-4V (Ti-64) alloy and Ti-5Al-5Mo-5V-1Cr-1Fe (Ti-55511) alloy, a series of forced shear tests on flat hat shaped (FHS) specimens for the two investigated materials was performed using a split Hopkinson pressure bar setup. The evolution of shear deformation was monitored by an ultra-high-speed camera (Kirana-05M). Localized shear band is induced in the two investigated materials under forced shear tests. Our results indicate that severe strain localization (adiabatic shear) is accompanied by a loss in the load carrying capacity, i.e., by a sudden drop in loading. Three distinct stages can be identified using a digital image correlation technique for accurate shear strain measurement. The microstructural analysis reveals that the dynamic failure mechanisms for Ti-64 and Ti-55511 alloys within the shear band are of a cohesive and adhesive nature, respectively. PMID:29303988

An incremental community detection method for social tagging systems using locality-sensitive hashing.

PubMed

Wu, Zhenyu; Zou, Ming

2014-10-01

An increasing number of users interact, collaborate, and share information through social networks. Unprecedented growth in social networks is generating a significant amount of unstructured social data. From such data, distilling communities where users have common interests and tracking variations of users' interests over time are important research tracks in fields such as opinion mining, trend prediction, and personalized services. However, these tasks are extremely difficult considering the highly dynamic characteristics of the data. Existing community detection methods are time consuming, making it difficult to process data in real time. In this paper, dynamic unstructured data is modeled as a stream. Tag assignments stream clustering (TASC), an incremental scalable community detection method, is proposed based on locality-sensitive hashing. Both tags and latent interactions among users are incorporated in the method. In our experiments, the social dynamic behaviors of users are first analyzed. The proposed TASC method is then compared with state-of-the-art clustering methods such as StreamKmeans and incremental k-clique; results indicate that TASC can detect communities more efficiently and effectively. Copyright © 2014 Elsevier Ltd. All rights reserved.

Equation of state of paramagnetic CrN from ab initio molecular dynamics

NASA Astrophysics Data System (ADS)

Steneteg, Peter; Alling, Björn; Abrikosov, Igor A.

2012-04-01

The equation of state for chromium nitride has been debated in the literature in connection with a proposed collapse of its bulk modulus following the pressure-induced transition from the paramagnetic cubic phase to the antiferromagnetic orthorhombic phase [F. Rivadulla , Nature Mater.1476-112210.1038/nmat2549 8, 947 (2009); B. Alling , Nature Mater.1476-112210.1038/nmat2722 9, 283 (2010)]. Experimentally the measurements are complicated due to the low transition pressure, while theoretically the simulation of magnetic disorder represents a major challenge. Here a first-principles method is suggested for the calculation of thermodynamic properties of magnetic materials in their high-temperature paramagnetic phase. It is based on ab initio molecular dynamics and simultaneous redistributions of the disordered but finite local magnetic moments. We apply this disordered local moments molecular dynamics method to the case of CrN and simulate its equation of state. In particular the debated bulk modulus is calculated in the paramagnetic cubic phase and is shown to be very similar to that of the antiferromagnetic orthorhombic CrN phase for all considered temperatures.

SPH with dynamical smoothing length adjustment based on the local flow kinematics

NASA Astrophysics Data System (ADS)

Olejnik, Michał; Szewc, Kamil; Pozorski, Jacek

2017-11-01

Due to the Lagrangian nature of Smoothed Particle Hydrodynamics (SPH), the adaptive resolution remains a challenging task. In this work, we first analyse the influence of the simulation parameters and the smoothing length on solution accuracy, in particular in high strain regions. Based on this analysis we develop a novel approach to dynamically adjust the kernel range for each SPH particle separately, accounting for the local flow kinematics. We use the Okubo-Weiss parameter that distinguishes the strain and vorticity dominated regions in the flow domain. The proposed development is relatively simple and implies only a moderate computational overhead. We validate the modified SPH algorithm for a selection of two-dimensional test cases: the Taylor-Green flow, the vortex spin-down, the lid-driven cavity and the dam-break flow against a sharp-edged obstacle. The simulation results show good agreement with the reference data and improvement of the long-term accuracy for unsteady flows. For the lid-driven cavity case, the proposed dynamical adjustment remedies the problem of tensile instability (particle clustering).

Depressurization amorphization of single-crystal boron carbide.

PubMed

Yan, X Q; Tang, Z; Zhang, L; Guo, J J; Jin, C Q; Zhang, Y; Goto, T; McCauley, J W; Chen, M W

2009-02-20

We report depressurization amorphization of single-crystal boron carbide (B4C) investigated by in situ high-pressure Raman spectroscopy. It was found that localized amorphization of B4C takes place during unloading from high pressures, and nonhydrostatic stresses play a critical role in the high-pressure phase transition. First-principles molecular dynamics simulations reveal that the depressurization amorphization results from pressure-induced irreversible bending of C-B-C atomic chains cross-linking 12 atom icosahedra at the rhombohedral vertices.

Photographic mark-recapture analysis of local dynamics within an open population of dolphins.

PubMed

Fearnbach, H; Durban, J; Parsons, K; Claridge, D

2012-07-01

Identifying demographic changes is important for understanding population dynamics. However, this requires long-term studies of definable populations of distinct individuals, which can be particularly challenging when studying mobile cetaceans in the marine environment. We collected photo-identification data from 19 years (1992-2010) to assess the dynamics of a population of bottlenose dolphins (Tursiops truncatus) restricted to the shallow (<7 m) waters of Little Bahama Bank, northern Bahamas. This population was known to range beyond our study area, so we adopted a Bayesian mixture modeling approach to mark-recapture to identify clusters of individuals that used the area to different extents, and we specifically estimated trends in survival, recruitment, and abundance of a "resident" population with high probabilities of identification. There was a high probability (p= 0.97) of a long-term decrease in the size of this resident population from a maximum of 47 dolphins (95% highest posterior density intervals, HPDI = 29-61) in 1996 to a minimum of just 24 dolphins (95% HPDI = 14-37) in 2009, a decline of 49% (95% HPDI = approximately 5% to approximately 75%). This was driven by low per capita recruitment (average approximately 0.02) that could not compensate for relatively low apparent survival rates (average approximately 0.94). Notably, there was a significant increase in apparent mortality (approximately 5 apparent mortalities vs. approximately 2 on average) in 1999 when two intense hurricanes passed over the study area, with a high probability (p = 0.83) of a drop below the average survival probability (approximately 0.91 in 1999; approximately 0.94, on average). As such, our mark-recapture approach enabled us to make useful inference about local dynamics within an open population of bottlenose dolphins; this should be applicable to other studies challenged by sampling highly mobile individuals with heterogeneous space use.

Combining Remote Temperature Sensing with in-Situ Sensing to Track Marine/Freshwater Mixing Dynamics

PubMed Central

McCaul, Margaret; Barland, Jack; Cleary, John; Cahalane, Conor; McCarthy, Tim; Diamond, Dermot

2016-01-01

The ability to track the dynamics of processes in natural water bodies on a global scale, and at a resolution that enables highly localised behaviour to be visualized, is an ideal scenario for understanding how local events can influence the global environment. While advances in in-situ chem/bio-sensing continue to be reported, costs and reliability issues still inhibit the implementation of large-scale deployments. In contrast, physical parameters like surface temperature can be tracked on a global scale using satellite remote sensing, and locally at high resolution via flyovers and drones using multi-spectral imaging. In this study, we show how a much more complete picture of submarine and intertidal groundwater discharge patterns in Kinvara Bay, Galway can be achieved using a fusion of data collected from the Earth Observation satellite (Landsat 8), small aircraft and in-situ sensors. Over the course of the four-day field campaign, over 65,000 in-situ temperatures, salinity and nutrient measurements were collected in parallel with high-resolution thermal imaging from aircraft flyovers. The processed in-situ data show highly correlated patterns between temperature and salinity at the southern end of the bay where freshwater springs can be identified at low tide. Salinity values range from 1 to 2 ppt at the southern end of the bay to 30 ppt at the mouth of the bay, indicating the presence of a freshwater wedge. The data clearly show that temperature differences can be used to track the dynamics of freshwater and seawater mixing in the inner bay region. This outcome suggests that combining the tremendous spatial density and wide geographical reach of remote temperature sensing (using drones, flyovers and satellites) with ground-truthing via appropriately located in-situ sensors (temperature, salinity, chemical, and biological) can produce a much more complete and accurate picture of the water dynamics than each modality used in isolation. PMID:27589770

Combining Remote Temperature Sensing with in-Situ Sensing to Track Marine/Freshwater Mixing Dynamics.

PubMed

McCaul, Margaret; Barland, Jack; Cleary, John; Cahalane, Conor; McCarthy, Tim; Diamond, Dermot

2016-08-31

The ability to track the dynamics of processes in natural water bodies on a global scale, and at a resolution that enables highly localised behaviour to be visualized, is an ideal scenario for understanding how local events can influence the global environment. While advances in in-situ chem/bio-sensing continue to be reported, costs and reliability issues still inhibit the implementation of large-scale deployments. In contrast, physical parameters like surface temperature can be tracked on a global scale using satellite remote sensing, and locally at high resolution via flyovers and drones using multi-spectral imaging. In this study, we show how a much more complete picture of submarine and intertidal groundwater discharge patterns in Kinvara Bay, Galway can be achieved using a fusion of data collected from the Earth Observation satellite (Landsat 8), small aircraft and in-situ sensors. Over the course of the four-day field campaign, over 65,000 in-situ temperatures, salinity and nutrient measurements were collected in parallel with high-resolution thermal imaging from aircraft flyovers. The processed in-situ data show highly correlated patterns between temperature and salinity at the southern end of the bay where freshwater springs can be identified at low tide. Salinity values range from 1 to 2 ppt at the southern end of the bay to 30 ppt at the mouth of the bay, indicating the presence of a freshwater wedge. The data clearly show that temperature differences can be used to track the dynamics of freshwater and seawater mixing in the inner bay region. This outcome suggests that combining the tremendous spatial density and wide geographical reach of remote temperature sensing (using drones, flyovers and satellites) with ground-truthing via appropriately located in-situ sensors (temperature, salinity, chemical, and biological) can produce a much more complete and accurate picture of the water dynamics than each modality used in isolation.

Segmental and local dynamics of stacked thin films of poly(methyl methacrylate)

NASA Astrophysics Data System (ADS)

Hayashi, Tatsuhiko; Fukao, Koji

2014-02-01

The glass transition temperature and the dynamics of the α and β processes have been investigated using differential scanning calorimetry and dielectric relaxation spectroscopy during successive annealing processes above the glass transition temperature for stacked thin films of poly(methyl methacrylate) (PMMA) of various thicknesses. The glass transition temperature and the dynamics of the α process (segmental motion) of as-stacked PMMA thin films exhibit thin-film-like behavior, insofar as the glass transition temperature is depressed and the dynamics of the α process are faster than those of the bulk system. Annealing at high temperature causes the glass transition temperature to increase from the reduced value and causes the dynamics of the α process to become slower approaching those of the bulk. Contrary to the segmental motion, the relaxation time of the β process (local motion) of the stacked PMMA thin films is almost equal to that of the bulk PMMA and is unaffected by the annealing process. However, the relaxation strengths of both the α process and β process show a strong correlation between each other. The sum of the relaxation strengths remains almost unchanged, while the individual relaxation strengths change during the annealing process. The fragility index of the stacked PMMA thin films increases with annealing, which suggests that the glassy state of the stacked thin films changes from strong to fragile.

Efficient visibility encoding for dynamic illumination in direct volume rendering.

PubMed

Kronander, Joel; Jönsson, Daniel; Löw, Joakim; Ljung, Patric; Ynnerman, Anders; Unger, Jonas

2012-03-01

We present an algorithm that enables real-time dynamic shading in direct volume rendering using general lighting, including directional lights, point lights, and environment maps. Real-time performance is achieved by encoding local and global volumetric visibility using spherical harmonic (SH) basis functions stored in an efficient multiresolution grid over the extent of the volume. Our method enables high-frequency shadows in the spatial domain, but is limited to a low-frequency approximation of visibility and illumination in the angular domain. In a first pass, level of detail (LOD) selection in the grid is based on the current transfer function setting. This enables rapid online computation and SH projection of the local spherical distribution of visibility information. Using a piecewise integration of the SH coefficients over the local regions, the global visibility within the volume is then computed. By representing the light sources using their SH projections, the integral over lighting, visibility, and isotropic phase functions can be efficiently computed during rendering. The utility of our method is demonstrated in several examples showing the generality and interactive performance of the approach.

Combining short- and long-range fluorescence reporters with simulations to explore the intramolecular dynamics of an intrinsically disordered protein.

PubMed

Zosel, Franziska; Haenni, Dominik; Soranno, Andrea; Nettels, Daniel; Schuler, Benjamin

2017-10-21

Intrinsically disordered proteins (IDPs) are increasingly recognized as a class of molecules that can exert essential biological functions even in the absence of a well-defined three-dimensional structure. Understanding the conformational distributions and dynamics of these highly flexible proteins is thus essential for explaining the molecular mechanisms underlying their function. Single-molecule fluorescence spectroscopy in combination with Förster resonance energy transfer (FRET) is a powerful tool for probing intramolecular distances and the rapid long-range distance dynamics in IDPs. To complement the information from FRET, we combine it with photoinduced electron transfer (PET) quenching to monitor local loop-closure kinetics at the same time and in the same molecule. Here we employed this combination to investigate the intrinsically disordered N-terminal domain of HIV-1 integrase. The results show that both long-range dynamics and loop closure kinetics on the sub-microsecond time scale can be obtained reliably from a single set of measurements by the analysis with a comprehensive model of the underlying photon statistics including both FRET and PET. A more detailed molecular interpretation of the results is enabled by direct comparison with a recent extensive atomistic molecular dynamics simulation of integrase. The simulations are in good agreement with experiment and can explain the deviation from simple models of chain dynamics by the formation of persistent local secondary structure. The results illustrate the power of a close combination of single-molecule spectroscopy and simulations for advancing our understanding of the dynamics and detailed mechanisms in unfolded and intrinsically disordered proteins.

Combining short- and long-range fluorescence reporters with simulations to explore the intramolecular dynamics of an intrinsically disordered protein

NASA Astrophysics Data System (ADS)

Zosel, Franziska; Haenni, Dominik; Soranno, Andrea; Nettels, Daniel; Schuler, Benjamin

2017-10-01

Intrinsically disordered proteins (IDPs) are increasingly recognized as a class of molecules that can exert essential biological functions even in the absence of a well-defined three-dimensional structure. Understanding the conformational distributions and dynamics of these highly flexible proteins is thus essential for explaining the molecular mechanisms underlying their function. Single-molecule fluorescence spectroscopy in combination with Förster resonance energy transfer (FRET) is a powerful tool for probing intramolecular distances and the rapid long-range distance dynamics in IDPs. To complement the information from FRET, we combine it with photoinduced electron transfer (PET) quenching to monitor local loop-closure kinetics at the same time and in the same molecule. Here we employed this combination to investigate the intrinsically disordered N-terminal domain of HIV-1 integrase. The results show that both long-range dynamics and loop closure kinetics on the sub-microsecond time scale can be obtained reliably from a single set of measurements by the analysis with a comprehensive model of the underlying photon statistics including both FRET and PET. A more detailed molecular interpretation of the results is enabled by direct comparison with a recent extensive atomistic molecular dynamics simulation of integrase. The simulations are in good agreement with experiment and can explain the deviation from simple models of chain dynamics by the formation of persistent local secondary structure. The results illustrate the power of a close combination of single-molecule spectroscopy and simulations for advancing our understanding of the dynamics and detailed mechanisms in unfolded and intrinsically disordered proteins.

Dynamics of the Tec‐family tyrosine kinase SH3 domains

PubMed Central

Roberts, Justin M.; Tarafdar, Sreya; Joseph, Raji E.; Andreotti, Amy H.; Smithgall, Thomas E.; Engen, John R.

2016-01-01

Abstract The Src Homology 3 (SH3) domain is an important regulatory domain found in many signaling proteins. X‐ray crystallography and NMR structures of SH3 domains are generally conserved but other studies indicate that protein flexibility and dynamics are not. We previously reported that based on hydrogen exchange mass spectrometry (HX MS) studies, there is variable flexibility and dynamics among the SH3 domains of the Src‐family tyrosine kinases and related proteins. Here we have extended our studies to the SH3 domains of the Tec family tyrosine kinases (Itk, Btk, Tec, Txk, Bmx). The SH3 domains of members of this family augment the variety in dynamics observed in previous SH3 domains. Txk and Bmx SH3 were found to be highly dynamic in solution by HX MS and Bmx was unstructured by NMR. Itk and Btk SH3 underwent a clear EX1 cooperative unfolding event, which was localized using pepsin digestion and mass spectrometry after hydrogen exchange labeling. The unfolding was localized to peptide regions that had been previously identified in the Src‐family and related protein SH3 domains, yet the kinetics of unfolding were not. Sequence alignment does not provide an easy explanation for the observed dynamics behavior, yet the similarity of location of EX1 unfolding suggests that higher‐order structural properties may play a role. While the exact reason for such dynamics is not clear, such motions can be exploited in intra‐ and intermolecular binding assays of proteins containing the domains. PMID:26808198

Seeing real-space dynamics of liquid water through inelastic x-ray scattering

DOE Office of Scientific and Technical Information (OSTI.GOV)

Iwashita, Takuya; Wu, Bin; Chen, Wei-Ren

Water is ubiquitous on earth, but we know little about the real-space motion of molecules in liquid water. We demonstrate that high-resolution inelastic x-ray scattering measurement over a wide range of momentum and energy transfer makes it possible to probe real-space, real-time dynamics of water molecules through the so-called Van Hove function. Water molecules are found to be strongly correlated in space and time with coupling between the first and second nearest-neighbor molecules. The local dynamic correlation of molecules observed here is crucial to a fundamental understanding of the origin of the physical properties of water, including viscosity. The resultsmore » also suggest that the quantum-mechanical nature of hydrogen bonds could influence its dynamics. Finally, the approach used here offers a powerful experimental method for investigating real-space dynamics of liquids.« less

Correlation-induced superconductivity dynamically stabilized and enhanced by laser irradiation.

PubMed

Ido, Kota; Ohgoe, Takahiro; Imada, Masatoshi

2017-08-01

Studies on out-of-equilibrium dynamics have paved a way to realize a new state of matter. Superconductor-like properties above room temperatures recently suggested to be in copper oxides achieved by selectively exciting vibrational phonon modes by laser have inspired studies on an alternative and general strategy to be pursued for high-temperature superconductivity. We show that the superconductivity can be enhanced by irradiating laser to correlated electron systems owing to two mechanisms: First, the effective attractive interaction of carriers is enhanced by the dynamical localization mechanism, which drives the system into strong coupling regions. Second, the irradiation allows reaching uniform and enhanced superconductivity dynamically stabilized without deteriorating into equilibrium inhomogeneities that suppress superconductivity. The dynamical superconductivity is subject to the Higgs oscillations during and after the irradiation. Our finding sheds light on a way to enhance superconductivity that is inaccessible in equilibrium in strongly correlated electron systems.

Seeing real-space dynamics of liquid water through inelastic x-ray scattering

DOE PAGES

Iwashita, Takuya; Wu, Bin; Chen, Wei-Ren; ...

2017-12-22

Water is ubiquitous on earth, but we know little about the real-space motion of molecules in liquid water. We demonstrate that high-resolution inelastic x-ray scattering measurement over a wide range of momentum and energy transfer makes it possible to probe real-space, real-time dynamics of water molecules through the so-called Van Hove function. Water molecules are found to be strongly correlated in space and time with coupling between the first and second nearest-neighbor molecules. The local dynamic correlation of molecules observed here is crucial to a fundamental understanding of the origin of the physical properties of water, including viscosity. The resultsmore » also suggest that the quantum-mechanical nature of hydrogen bonds could influence its dynamics. Finally, the approach used here offers a powerful experimental method for investigating real-space dynamics of liquids.« less

Distributed Optimal Consensus Over Resource Allocation Network and Its Application to Dynamical Economic Dispatch.

PubMed

Li, Chaojie; Yu, Xinghuo; Huang, Tingwen; He, Xing; Chaojie Li; Xinghuo Yu; Tingwen Huang; Xing He; Li, Chaojie; Huang, Tingwen; He, Xing; Yu, Xinghuo

2018-06-01

The resource allocation problem is studied and reformulated by a distributed interior point method via a -logarithmic barrier. By the facilitation of the graph Laplacian, a fully distributed continuous-time multiagent system is developed for solving the problem. Specifically, to avoid high singularity of the -logarithmic barrier at boundary, an adaptive parameter switching strategy is introduced into this dynamical multiagent system. The convergence rate of the distributed algorithm is obtained. Moreover, a novel distributed primal-dual dynamical multiagent system is designed in a smart grid scenario to seek the saddle point of dynamical economic dispatch, which coincides with the optimal solution. The dual decomposition technique is applied to transform the optimization problem into easily solvable resource allocation subproblems with local inequality constraints. The good performance of the new dynamical systems is, respectively, verified by a numerical example and the IEEE six-bus test system-based simulations.

Scale-free networks as an epiphenomenon of memory

NASA Astrophysics Data System (ADS)

Caravelli, F.; Hamma, A.; Di Ventra, M.

2015-01-01

Many realistic networks are scale free, with small characteristic path lengths, high clustering, and power law in their degree distribution. They can be obtained by dynamical networks in which a preferential attachment process takes place. However, this mechanism is non-local, in the sense that it requires knowledge of the whole graph in order for the graph to be updated. Instead, if preferential attachment and realistic networks occur in physical systems, these features need to emerge from a local model. In this paper, we propose a local model and show that a possible ingredient (which is often underrated) for obtaining scale-free networks with local rules is memory. Such a model can be realised in solid-state circuits, using non-linear passive elements with memory such as memristors, and thus can be tested experimentally.

Post-Traumatic Stress Constrains the Dynamic Repertoire of Neural Activity.

PubMed

Mišić, Bratislav; Dunkley, Benjamin T; Sedge, Paul A; Da Costa, Leodante; Fatima, Zainab; Berman, Marc G; Doesburg, Sam M; McIntosh, Anthony R; Grodecki, Richard; Jetly, Rakesh; Pang, Elizabeth W; Taylor, Margot J

2016-01-13

Post-traumatic stress disorder (PTSD) is an anxiety disorder arising from exposure to a traumatic event. Although primarily defined in terms of behavioral symptoms, the global neurophysiological effects of traumatic stress are increasingly recognized as a critical facet of the human PTSD phenotype. Here we use magnetoencephalographic recordings to investigate two aspects of information processing: inter-regional communication (measured by functional connectivity) and the dynamic range of neural activity (measured in terms of local signal variability). We find that both measures differentiate soldiers diagnosed with PTSD from soldiers without PTSD, from healthy civilians, and from civilians with mild traumatic brain injury, which is commonly comorbid with PTSD. Specifically, soldiers with PTSD display inter-regional hypersynchrony at high frequencies (80-150 Hz), as well as a concomitant decrease in signal variability. The two patterns are spatially correlated and most pronounced in a left temporal subnetwork, including the hippocampus and amygdala. We hypothesize that the observed hypersynchrony may effectively constrain the expression of local dynamics, resulting in less variable activity and a reduced dynamic repertoire. Thus, the re-experiencing phenomena and affective sequelae in combat-related PTSD may result from functional networks becoming "stuck" in configurations reflecting memories, emotions, and thoughts originating from the traumatizing experience. The present study investigates the effects of post-traumatic stress disorder (PTSD) in combat-exposed soldiers. We find that soldiers with PTSD exhibit hypersynchrony in a circuit of temporal lobe areas associated with learning and memory function. This rigid functional architecture is associated with a decrease in signal variability in the same areas, suggesting that the observed hypersynchrony may constrain the expression of local dynamics, resulting in a reduced dynamic range. Our findings suggest that the re-experiencing of traumatic events in PTSD may result from functional networks becoming locked in configurations that reflect memories, emotions, and thoughts associated with the traumatic experience. Copyright © 2016 the authors 0270-6474/16/360419-13$15.00/0.

Preventing mother-to-child transmission of HIV in Vietnam and Indonesia: diverging care dynamics.

PubMed

Hardon, Anita Petra; Oosterhoff, Pauline; Imelda, Johanna D; Anh, Nguyen Thu; Hidayana, Irwan

2009-09-01

How do women and frontline health workers engage in preventing mother-to-child HIV transmission (PMTCT) in urban areas of Vietnam and Indonesia, where HIV is highly stigmatized and is associated with injecting drug use and sex work? This qualitative study explores local dynamics of care, using a mix of observations, focus group discussions, and interviews. In Indonesia the study was conducted in a community-based PMTCT program run by an NGO, while in Vietnam the study explored the care dynamics in routine PMTCT services, implemented by district and provincial public health facilities. In both of these PMTCT arrangements (the routine provider initiated approach in Vietnam and a more client-oriented system in Indonesia), pregnant women value the provision of HIV tests in antenatal care (ANC). Concerns are raised, however, by the unhappy few who test positive. These women are unsatisfied with the quality of counselling, and the failure to provide antiretroviral treatments. Acceptability of HIV testing in ANC is high, but the key policy issue from the perspective of pregnant women is whether the PMTCT services can provide good quality counselling and the necessary follow-up care. We find local level providers of PMTCT are pleased with the PMTCT program. In Vietnam, the PMTCT program offers health workers protection against HIV, since they can refer women away from the district health service for delivery. In Indonesia, community cadres are pleased with the financial incentives gained by mobilizing clients for the program. We conclude that achieving the global aims of reducing HIV infections in children by 50% requires a tailoring of globally designed public health programs to context-specific gendered transmission pathways of HIV, as well as local opportunities for follow-up care and social support.

Landscape matrix mediates occupancy dynamics of Neotropical avian insectivores

USGS Publications Warehouse

Kennedy, Christina M.; Campbell Grant, Evan H.; Neel, Maile C.; Fagan, William F.; Marpa, Peter P.

2011-01-01

In addition to patch-level attributes (i.e., area and isolation), the nature of land cover between habitat patches (the matrix) may drive colonization and extinction dynamics in fragmented landscapes. Despite a long-standing recognition of matrix effects in fragmented systems, an understanding of the relative impacts of different types of land cover on patterns and dynamics of species occurrence remains limited. We employed multi-season occupancy models to determine the relative influence of patch area, patch isolation, within-patch vegetation structure, and landscape matrix on occupancy dynamics of nine Neotropical nsectivorous birds in 99 forest patches embedded in four matrix types (agriculture, suburban evelopment, bauxite mining, and forest) in central Jamaica. We found that within-patch vegetation structure and the matrix type between patches were more important than patch area and patch isolation in determining local colonization and local extinction probabilities, and that the effects of patch area, isolation, and vegetation structure on occupancy dynamics tended to be matrix and species dependent. Across the avian community, the landscape matrix influenced local extinction more than local colonization, indicating that extinction processes, rather than movement, likely drive interspecific differences in occupancy dynamics. These findings lend crucial empirical support to the hypothesis that species occupancy dynamics in fragmented systems may depend greatly upon the landscape context.

Global, quantitative and dynamic mapping of protein subcellular localization.

PubMed

Itzhak, Daniel N; Tyanova, Stefka; Cox, Jürgen; Borner, Georg Hh

2016-06-09

Subcellular localization critically influences protein function, and cells control protein localization to regulate biological processes. We have developed and applied Dynamic Organellar Maps, a proteomic method that allows global mapping of protein translocation events. We initially used maps statically to generate a database with localization and absolute copy number information for over 8700 proteins from HeLa cells, approaching comprehensive coverage. All major organelles were resolved, with exceptional prediction accuracy (estimated at >92%). Combining spatial and abundance information yielded an unprecedented quantitative view of HeLa cell anatomy and organellar composition, at the protein level. We subsequently demonstrated the dynamic capabilities of the approach by capturing translocation events following EGF stimulation, which we integrated into a quantitative model. Dynamic Organellar Maps enable the proteome-wide analysis of physiological protein movements, without requiring any reagents specific to the investigated process, and will thus be widely applicable in cell biology.

Quantum recurrence and fractional dynamic localization in ac-driven perfect state transfer Hamiltonians

DOE Office of Scientific and Technical Information (OSTI.GOV)

Longhi, Stefano, E-mail: stefano.longhi@fisi.polimi.it

Quantum recurrence and dynamic localization are investigated in a class of ac-driven tight-binding Hamiltonians, the Krawtchouk quantum chain, which in the undriven case provides a paradigmatic Hamiltonian model that realizes perfect quantum state transfer and mirror inversion. The equivalence between the ac-driven single-particle Krawtchouk Hamiltonian H{sup -hat} (t) and the non-interacting ac-driven bosonic junction Hamiltonian enables to determine in a closed form the quasi energy spectrum of H{sup -hat} (t) and the conditions for exact wave packet reconstruction (dynamic localization). In particular, we show that quantum recurrence, which is predicted by the general quantum recurrence theorem, is exact for themore » Krawtchouk quantum chain in a dense range of the driving amplitude. Exact quantum recurrence provides perfect wave packet reconstruction at a frequency which is fractional than the driving frequency, a phenomenon that can be referred to as fractional dynamic localization.« less

Assessment of Walking Stability of Elderly by Means of Nonlinear Time-Series Analysis and Simple Accelerometry

NASA Astrophysics Data System (ADS)

Ohtaki, Yasuaki; Arif, Muhammad; Suzuki, Akihiro; Fujita, Kazuki; Inooka, Hikaru; Nagatomi, Ryoichi; Tsuji, Ichiro

This study presents an assessment of walking stability in elderly people, focusing on local dynamic stability of walking. Its main objectives were to propose a technique to quantify local dynamic stability using nonlinear time-series analyses and a portable instrument, and to investigate their reliability in revealing the efficacy of an exercise training intervention for elderly people for improvement of walking stability. The method measured three-dimensional acceleration of the upper body, and computation of Lyapunov exponents, thereby directly quantifying the local stability of the dynamic system. Straight level walking of young and elderly subjects was investigated in the experimental study. We compared Lyapunov exponents of young and the elderly subjects, and of groups before and after the exercise intervention. Experimental results demonstrated that the exercise intervention improved local dynamic stability of walking. The proposed method was useful in revealing effects and efficacies of the exercise intervention for elderly people.

Spontaneous and electrically modulated spatiotemporal dynamics of the neocortical slow oscillation and associated local fast activity.

PubMed

Greenberg, Anastasia; Dickson, Clayton T

2013-12-01

The neocortical slow oscillation (SO; ~1Hz) of non-REM sleep and anesthesia reflects synchronized network activity composed of alternating active and silent (ON/OFF) phases at the local network and cellular level. The SO itself shows self-organized spatiotemporal dynamics as it appears to originate at unique foci on each cycle and then propagates across the cortical surface. During sleep, this rhythm is relevant for neuroplastic processes mediating memory consolidation especially since its enhancement by slow, rhythmic electrical fields improves subsequent recall. However, the neurobiological mechanism by which spontaneous or enhanced SO activity might operate on memory traces is unknown. Here we show a series of original results, using cycle to cycle tracking across multiple neocortical sites in urethane anesthetized rats: The spontaneous spatiotemporal dynamics of the SO are complex, showing interfering propagation patterns in the anterior-to-posterior plane. These patterns compete for expression and tend to alternate following phase resets that take place during the silent OFF phase of the SO. Applying sinusoidal electrical field stimulation to the anterior pole of the cerebral cortex progressively entrained local field, gamma, and multi-unit activity at all sites, while disrupting the coordination of endogenous SO activity. Field stimulation also biased propagation in the anterior-to-posterior direction and more notably, enhanced the long-range gamma synchrony between cortical regions. These results are the first to show that changes to slow wave dynamics cause enhancements in high frequency cortico-cortical communication and provide mechanistic clues into how the SO is relevant for sleep-dependent memory consolidation. © 2013.

Effect of the lattice dynamics on the electronic structure of paramagnetic NiO within the disordered local moment picture

NASA Astrophysics Data System (ADS)

Mozafari, Elham; Alling, Björn; Belov, Maxim P.; Abrikosov, Igor A.

2018-01-01

Using the disordered local moments approach in combination with the ab initio molecular dynamics method, we simulate the behavior of a paramagnetic phase of NiO at finite temperatures to investigate the effect of magnetic disorder, thermal expansion, and lattice vibrations on its electronic structure. In addition, we study its lattice dynamics. We verify the reliability of our theoretical scheme via comparison of our results with available experiment and earlier theoretical studies carried out within static approximations. We present the phonon dispersion relations for the paramagnetic rock-salt (B1) phase of NiO and demonstrate that it is dynamically stable. We observe that including the magnetic disorder to simulate the paramagnetic phase has a small yet visible effect on the band gap. The amplitude of the local magnetic moment of Ni ions from our calculations for both antiferromagnetic and paramagnetic phases agree well with other theoretical and experimental values. We demonstrate that the increase of temperature up to 1000 K does not affect the electronic structure strongly. Taking into account the lattice vibrations and thermal expansion at higher temperatures have a major impact on the electronic structure, reducing the band gap from ˜3.5 eV at 600 K to ˜2.5 eV at 2000 K. We conclude that static lattice approximations can be safely employed in simulations of the paramagnetic state of NiO up to relatively high temperatures (˜1000 K), but as we get closer to the melting temperature vibrational effects become quite large and therefore should be included in the calculations.

Molecular Dynamics Study of Polystyrene-b-poly(ethylene oxide) Asymmetric Diblock Copolymer Systems.

PubMed

Dobies, M; Makrocka-Rydzyk, M; Jenczyk, J; Jarek, M; Spontak, R J; Jurga, S

2017-09-12

Two polystyrene-b-poly(ethylene oxide) (PS-b-PEO) diblock copolymers differing in molecular mass (49 and 78 kDa) but possessing the same PEO cylindrical morphology are examined to elucidate their molecular dynamics. Of particular interest here is the molecular motion of the PEO blocks involved in the rigid amorphous fraction (RAF). An analysis of complementary thermal calorimetry and X-ray scattering data confirms the presence of microphase-separated morphology as well as semicrystalline structure in each copolymer. Molecular motion within the copolymer systems is monitored by dielectric and nuclear magnetic resonance spectroscopies. The results reported herein reveal the existence of two local Arrhenius-type processes attributed to the noncooperative local motion of PEO segments involved in fully amorphous and rigid amorphous PEO microphases. In both systems, two structural relaxations governed by glass-transition phenomena are identified and assigned to cooperative segmental motion in the fully amorphous phase (the α process) and the RAF (the α c process). We measure the temperature dependence of the dynamics associated with all of the processes mentioned above and propose that these local processes are associated with corresponding cooperative segmental motion in both copolymer systems. In marked contrast to the thermal activation of the α process as discerned in both copolymers, the α c process appears to be a sensitive probe of the copolymer nanostructure. That is, the copolymer with shorter PEO blocks exhibits more highly restricted cooperative dynamics of PEO segments in the RAF, which can be explained in terms of the greater constraint imposed by the glassy PS matrix on the PEO blocks comprising smaller cylindrical microdomains.

Thermal inclusions: how one spin can destroy a many-body localized phase

NASA Astrophysics Data System (ADS)

Ponte, Pedro; Laumann, C. R.; Huse, David A.; Chandran, A.

2017-10-01

Many-body localized (MBL) systems lie outside the framework of statistical mechanics, as they fail to equilibrate under their own quantum dynamics. Even basic features of MBL systems, such as their stability to thermal inclusions and the nature of the dynamical transition to thermalizing behaviour, remain poorly understood. We study a simple central spin model to address these questions: a two-level system interacting with strength J with N≫1 localized bits subject to random fields. On increasing J, the system transitions from an MBL to a delocalized phase on the vanishing scale Jc(N)˜1/N, up to logarithmic corrections. In the transition region, the single-site eigenstate entanglement entropies exhibit bimodal distributions, so that localized bits are either `on' (strongly entangled) or `off' (weakly entangled) in eigenstates. The clusters of `on' bits vary significantly between eigenstates of the same sample, which provides evidence for a heterogeneous discontinuous transition out of the localized phase in single-site observables. We obtain these results by perturbative mapping to bond percolation on the hypercube at small J and by numerical exact diagonalization of the full many-body system. Our results support the arguments that the MBL phase is unstable in systems with short-range interactions and quenched randomness in dimensions d that are high but finite. This article is part of the themed issue 'Breakdown of ergodicity in quantum systems: from solids to synthetic matter'.

Responses of orchids to habitat change in Corsica over 27 years.

PubMed

Vogt-Schilb, Hélène; Pradel, Roger; Geniez, Philippe; Hugot, Laetitia; Delage, Alain; Richard, Franck; Schatz, Bertrand

2016-07-01

Orchids are known to be particularly sensitive to environmental changes due to their narrow ranges of secondary successional habitats. Lack of data at the community level limits our ability to evaluate how traits of different species influence their responses to habitat change. Here, we used a diachronic survey of Mediterranean orchid communities in Corsica to examine this question. Using data from two field surveys conducted 27 years apart (1982-84 and 2009-11) at the same 45 sites in Corsica, we evaluated the impact of increase in woody plant cover (WPC) on (i) the richness and composition and (ii) the local extinction/colonization dynamics of orchids. We applied a Bayesian multispecies site-occupancy model to each of the 36 orchid species recorded at these sites to estimate the detection probability of each species, enabling us to account for under-detection in estimating their dynamics. Between 1982 and 2011, WPC changed at 82·3 % of sites (increasing at 75·6 %, decreasing at 6·7 %). Despite marked changes in composition of orchid communities at the local scale, no significant change was detected in species richness at the regional scale. Canopy closure affected the probability of new colonization of sites, but had no significant influence on the probability of local extinction. However, the abundance of shade-intolerant species declined more sharply than that of shade-requiring species. Among orchid species, the detection probability was significantly and positively correlated with population density and plant height. This study reveals contrasted dynamics of orchid communities between local and regional scales in Corsica. Although high turnover in communities was found at the local scale, regional species richness was maintained despite major land-use changes. Conserving landscape mosaics could provide locally suitable habitats for orchids of different ecologies to maintain diversity at larger spatial scales. © The Author 2016. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved. For Permissions, please email: journals.permissions@oup.com.

Dynamic modulation of electronic properties of graphene by localized carbon doping using focused electron beam induced deposition

NASA Astrophysics Data System (ADS)

Kim, S.; Russell, M.; Henry, M.; Kim, S. S.; Naik, R. R.; Voevodin, A. A.; Jang, S. S.; Tsukruk, V. V.; Fedorov, A. G.

2015-09-01

We report on the first demonstration of controllable carbon doping of graphene to engineer local electronic properties of a graphene conduction channel using focused electron beam induced deposition (FEBID). Electrical measurements indicate that an ``n-p-n'' junction on graphene conduction channel is formed by partial carbon deposition near the source and drain metal contacts by low energy (<50 eV) secondary electrons due to inelastic collisions of long range backscattered primary electrons generated from a low dose of high energy (25 keV) electron beam (1 × 1018 e- per cm2). Detailed AFM imaging provides direct evidence of the new mechanism responsible for dynamic evolution of the locally varying graphene doping. The FEBID carbon atoms, which are physisorbed and weakly bound to graphene, diffuse towards the middle of graphene conduction channel due to their surface chemical potential gradient, resulting in negative shift of Dirac voltage. Increasing a primary electron dose to 1 × 1019 e- per cm2 results in a significant increase of carbon deposition, such that it covers the entire graphene conduction channel at high surface density, leading to n-doping of graphene channel. Collectively, these findings establish a unique capability of FEBID technique to dynamically modulate the doping state of graphene, thus enabling a new route to resist-free, ``direct-write'' functional patterning of graphene-based electronic devices with potential for on-demand re-configurability.We report on the first demonstration of controllable carbon doping of graphene to engineer local electronic properties of a graphene conduction channel using focused electron beam induced deposition (FEBID). Electrical measurements indicate that an ``n-p-n'' junction on graphene conduction channel is formed by partial carbon deposition near the source and drain metal contacts by low energy (<50 eV) secondary electrons due to inelastic collisions of long range backscattered primary electrons generated from a low dose of high energy (25 keV) electron beam (1 × 1018 e- per cm2). Detailed AFM imaging provides direct evidence of the new mechanism responsible for dynamic evolution of the locally varying graphene doping. The FEBID carbon atoms, which are physisorbed and weakly bound to graphene, diffuse towards the middle of graphene conduction channel due to their surface chemical potential gradient, resulting in negative shift of Dirac voltage. Increasing a primary electron dose to 1 × 1019 e- per cm2 results in a significant increase of carbon deposition, such that it covers the entire graphene conduction channel at high surface density, leading to n-doping of graphene channel. Collectively, these findings establish a unique capability of FEBID technique to dynamically modulate the doping state of graphene, thus enabling a new route to resist-free, ``direct-write'' functional patterning of graphene-based electronic devices with potential for on-demand re-configurability. Electronic supplementary information (ESI) available: Optimization of a PMMA-mediated wet transfer method of graphene, transfer characteristics of all the channels, raw data of drain-source current measured by sweeping a backgate voltage and an AFM topography image and cross-sectional profiles of Fig. 4 and the corresponding electrical measurement along with an estimation of carbon diffusion coefficient. See DOI: 10.1039/c5nr04063a

Local dynamics in decision making: The evolution of preference within and across decisions

NASA Astrophysics Data System (ADS)

O'Hora, Denis; Dale, Rick; Piiroinen, Petri T.; Connolly, Fionnuala

2013-07-01

Within decisions, perceived alternatives compete until one is preferred. Across decisions, the playing field on which these alternatives compete evolves to favor certain alternatives. Mouse cursor trajectories provide rich continuous information related to such cognitive processes during decision making. In three experiments, participants learned to choose symbols to earn points in a discrimination learning paradigm and the cursor trajectories of their responses were recorded. Decisions between two choices that earned equally high-point rewards exhibited far less competition than decisions between choices that earned equally low-point rewards. Using positional coordinates in the trajectories, it was possible to infer a potential field in which the choice locations occupied areas of minimal potential. These decision spaces evolved through the experiments, as participants learned which options to choose. This visualisation approach provides a potential framework for the analysis of local dynamics in decision-making that could help mitigate both theoretical disputes and disparate empirical results.

Imaging electric field dynamics with graphene optoelectronics.

PubMed

Horng, Jason; Balch, Halleh B; McGuire, Allister F; Tsai, Hsin-Zon; Forrester, Patrick R; Crommie, Michael F; Cui, Bianxiao; Wang, Feng

2016-12-16

The use of electric fields for signalling and control in liquids is widespread, spanning bioelectric activity in cells to electrical manipulation of microstructures in lab-on-a-chip devices. However, an appropriate tool to resolve the spatio-temporal distribution of electric fields over a large dynamic range has yet to be developed. Here we present a label-free method to image local electric fields in real time and under ambient conditions. Our technique combines the unique gate-variable optical transitions of graphene with a critically coupled planar waveguide platform that enables highly sensitive detection of local electric fields with a voltage sensitivity of a few microvolts, a spatial resolution of tens of micrometres and a frequency response over tens of kilohertz. Our imaging platform enables parallel detection of electric fields over a large field of view and can be tailored to broad applications spanning lab-on-a-chip device engineering to analysis of bioelectric phenomena.

Imaging calcium sparks in cardiac myocytes.

PubMed

Guatimosim, Silvia; Guatimosim, Cristina; Song, Long-Sheng

2011-01-01

Calcium ions play fundamental roles in many cellular processes in virtually all type of cells. The use of Ca(2+) sensitive fluorescent indicators has proven to be an indispensable tool for studying the spatio-temporal dynamics of intracellular calcium ([Ca(2+)](i)). With the aid of laser scanning confocal microscopy and new generation of Ca(2+) indicators, highly localized, short-lived Ca(2+) signals, namely Ca(2+) sparks, were revealed as elementary Ca(2+) release events during excitation-contraction coupling in cardiomyocytes. Since the discovery of Ca(2+) sparks in 1993, the demonstration of dynamic Ca(2+) micro-domains in living cardiomyocytes has revolutionized our understanding of Ca(2+)-mediated signal transduction in normal and diseased hearts. In this chapter, we have described a commonly used method for recording local and global Ca(2+) signals in cardiomyocytes using the fluorescent indicator fluo-4 acetoxymethyl (AM) and laser scanning confocal microscopy.

On the emergence of a generalised Gamma distribution. Application to traded volume in financial markets

NASA Astrophysics Data System (ADS)

Duarte Queirós, S. M.

2005-08-01

This letter reports on a stochastic dynamical scenario whose associated stationary probability density function is exactly a generalised form, with a power law instead of exponencial decay, of the ubiquitous Gamma distribution. This generalisation, also known as F-distribution, was empirically proposed for the first time to adjust for high-frequency stock traded volume distributions in financial markets and verified in experiments with granular material. The dynamical assumption presented herein is based on local temporal fluctuations of the average value of the observable under study. This proposal is related to superstatistics and thus to the current nonextensive statistical mechanics framework. For the specific case of stock traded volume, we connect the local fluctuations in the mean stock traded volume with the typical herding behaviour presented by financial traders. Last of all, NASDAQ 1 and 2 minute stock traded volume sequences and probability density functions are numerically reproduced.

Locality and universality of quantum memory effects.

PubMed

Liu, B-H; Wißmann, S; Hu, X-M; Zhang, C; Huang, Y-F; Li, C-F; Guo, G-C; Karlsson, A; Piilo, J; Breuer, H-P

2014-09-11

The modeling and analysis of the dynamics of complex systems often requires to employ non-Markovian stochastic processes. While there is a clear and well-established mathematical definition for non-Markovianity in the case of classical systems, the extension to the quantum regime recently caused a vivid debate, leading to many different proposals for the characterization and quantification of memory effects in the dynamics of open quantum systems. Here, we derive a mathematical representation for the non-Markovianity measure based on the exchange of information between the open system and its environment, which reveals the locality and universality of non-Markovianity in the quantum state space and substantially simplifies its numerical and experimental determination. We further illustrate the application of this representation by means of an all-optical experiment which allows the measurement of the degree of memory effects in a photonic quantum process with high accuracy.

Nonlinear structural joint model updating based on instantaneous characteristics of dynamic responses

NASA Astrophysics Data System (ADS)

Wang, Zuo-Cai; Xin, Yu; Ren, Wei-Xin

2016-08-01

This paper proposes a new nonlinear joint model updating method for shear type structures based on the instantaneous characteristics of the decomposed structural dynamic responses. To obtain an accurate representation of a nonlinear system's dynamics, the nonlinear joint model is described as the nonlinear spring element with bilinear stiffness. The instantaneous frequencies and amplitudes of the decomposed mono-component are first extracted by the analytical mode decomposition (AMD) method. Then, an objective function based on the residuals of the instantaneous frequencies and amplitudes between the experimental structure and the nonlinear model is created for the nonlinear joint model updating. The optimal values of the nonlinear joint model parameters are obtained by minimizing the objective function using the simulated annealing global optimization method. To validate the effectiveness of the proposed method, a single-story shear type structure subjected to earthquake and harmonic excitations is simulated as a numerical example. Then, a beam structure with multiple local nonlinear elements subjected to earthquake excitation is also simulated. The nonlinear beam structure is updated based on the global and local model using the proposed method. The results show that the proposed local nonlinear model updating method is more effective for structures with multiple local nonlinear elements. Finally, the proposed method is verified by the shake table test of a real high voltage switch structure. The accuracy of the proposed method is quantified both in numerical and experimental applications using the defined error indices. Both the numerical and experimental results have shown that the proposed method can effectively update the nonlinear joint model.

Foreshocks during the nucleation of stick-slip instability

USGS Publications Warehouse

McLaskey, Gregory C.; Kilgore, Brian D.

2013-01-01

We report on laboratory experiments which investigate interactions between aseismic slip, stress changes, and seismicity on a critically stressed fault during the nucleation of stick-slip instability. We monitor quasi-static and dynamic changes in local shear stress and fault slip with arrays of gages deployed along a simulated strike-slip fault (2 m long and 0.4 m deep) in a saw cut sample of Sierra White granite. With 14 piezoelectric sensors, we simultaneously monitor seismic signals produced during the nucleation phase and subsequent dynamic rupture. We observe localized aseismic fault slip in an approximately meter-sized zone in the center of the fault, while the ends of the fault remain locked. Clusters of high-frequency foreshocks (Mw ~ −6.5 to −5.0) can occur in this slowly slipping zone 5–50 ms prior to the initiation of dynamic rupture; their occurrence appears to be dependent on the rate at which local shear stress is applied to the fault. The meter-sized nucleation zone is generally consistent with theoretical estimates, but source radii of the foreshocks (2 to 70 mm) are 1 to 2 orders of magnitude smaller than the theoretical minimum length scale over which earthquake nucleation can occur. We propose that frictional stability and the transition between seismic and aseismic slip are modulated by local stressing rate and that fault sections, which would typically slip aseismically, may radiate seismic waves if they are rapidly stressed. Fault behavior of this type may provide physical insight into the mechanics of foreshocks, tremor, repeating earthquake sequences, and a minimum earthquake source dimension.

Unified force-level theory of multiscale transient localization and emergent elasticity in polymer solutions and melts

NASA Astrophysics Data System (ADS)

Dell, Zachary E.; Schweizer, Kenneth S.

A unified, microscopic, theoretical understanding of polymer dynamics in concentrated liquids from segmental to macromolecular scales remains an open problem. We have formulated a statistical mechanical theory for this problem that explicitly accounts for intra- and inter-molecular forces at the Kuhn segment level. The theory is self-consistently closed at the level of a matrix of dynamical second moments of a tagged chain. Two distinct regimes of isotropic transient localization are predicted. In semidilute solutions, weak localization is predicted on a mesoscopic length scale between segment and chain scales which is a power law function of the invariant packing length. This is consistent with the breakdown of Rouse dynamics and the emergence of entanglements. The chain structural correlations in the dynamically arrested state are also computed. In dense melts, strong localization is predicted on a scale much smaller than the segment size which is weakly dependent on chain connectivity and signals the onset of glassy dynamics. Predictions of the dynamic plateau shear modulus are consistent with the known features of emergent rubbery and glassy elasticity. Generalizations to treat the effects of chemical crosslinking and physical bond formation in polymer gels are possible.

Subcellular metabolic contrast in living tissue using dynamic full field OCT (D-FFOCT) (Conference Presentation)

NASA Astrophysics Data System (ADS)

Apelian, Clement; Harms, Fabrice; Thouvenin, Olivier; Boccara, Claude A.

2016-03-01

Cells shape or density is an important marker of tissues pathology. However, individual cells are difficult to observe in thick tissues frequently presenting highly scattering structures such as collagen fibers. Endogenous techniques struggle to image cells in these conditions. Moreover, exogenous contrast agents like dyes, fluorophores or nanoparticles cannot always be used, especially if non-invasive imaging is required. Scatterers motion happening down to the millisecond scale, much faster than the fix and highly scattering structures (global motion of the tissue), allowed us to develop a new approach based on the time dependence of the FF-OCT signals. This method reveals hidden cells after a spatiotemporal analysis based on singular value decomposition and wavelet analysis concepts. It does also give us access to local dynamics of imaged scatterers. This dynamic information is linked with the local metabolic activity that drives these scatterers. Our technique can explore subcellular scales with micrometric resolution and dynamics ranging from the millisecond to seconds. By this mean we studied a wide range of tissues, animal and human in both normal and pathological conditions (cancer, ischemia, osmotic shock…) in different organs such as liver, kidney, and brain among others. Different cells, undetectable with FF-OCT, were identified (erythrocytes, hepatocytes…). Different scatterer clusters express different characteristic times and thus can be related to different mechanisms that we identify with metabolic functions. We are confident that the D-FFOCT, by accessing to a new spatiotemporal metabolic contrast, will be a leading technique on tissue imaging and could lead to better medical diagnosis.

Dynamic Neural State Identification in Deep Brain Local Field Potentials of Neuropathic Pain.

PubMed

Luo, Huichun; Huang, Yongzhi; Du, Xueying; Zhang, Yunpeng; Green, Alexander L; Aziz, Tipu Z; Wang, Shouyan

2018-01-01

In neuropathic pain, the neurophysiological and neuropathological function of the ventro-posterolateral nucleus of the thalamus (VPL) and the periventricular gray/periaqueductal gray area (PVAG) involves multiple frequency oscillations. Moreover, oscillations related to pain perception and modulation change dynamically over time. Fluctuations in these neural oscillations reflect the dynamic neural states of the nucleus. In this study, an approach to classifying the synchronization level was developed to dynamically identify the neural states. An oscillation extraction model based on windowed wavelet packet transform was designed to characterize the activity level of oscillations. The wavelet packet coefficients sparsely represented the activity level of theta and alpha oscillations in local field potentials (LFPs). Then, a state discrimination model was designed to calculate an adaptive threshold to determine the activity level of oscillations. Finally, the neural state was represented by the activity levels of both theta and alpha oscillations. The relationship between neural states and pain relief was further evaluated. The performance of the state identification approach achieved sensitivity and specificity beyond 80% in simulation signals. Neural states of the PVAG and VPL were dynamically identified from LFPs of neuropathic pain patients. The occurrence of neural states based on theta and alpha oscillations were correlated to the degree of pain relief by deep brain stimulation. In the PVAG LFPs, the occurrence of the state with high activity levels of theta oscillations independent of alpha and the state with low-level alpha and high-level theta oscillations were significantly correlated with pain relief by deep brain stimulation. This study provides a reliable approach to identifying the dynamic neural states in LFPs with a low signal-to-noise ratio by using sparse representation based on wavelet packet transform. Furthermore, it may advance closed-loop deep brain stimulation based on neural states integrating multiple neural oscillations.

Dynamic Neural State Identification in Deep Brain Local Field Potentials of Neuropathic Pain

PubMed Central

Luo, Huichun; Huang, Yongzhi; Du, Xueying; Zhang, Yunpeng; Green, Alexander L.; Aziz, Tipu Z.; Wang, Shouyan

2018-01-01

In neuropathic pain, the neurophysiological and neuropathological function of the ventro-posterolateral nucleus of the thalamus (VPL) and the periventricular gray/periaqueductal gray area (PVAG) involves multiple frequency oscillations. Moreover, oscillations related to pain perception and modulation change dynamically over time. Fluctuations in these neural oscillations reflect the dynamic neural states of the nucleus. In this study, an approach to classifying the synchronization level was developed to dynamically identify the neural states. An oscillation extraction model based on windowed wavelet packet transform was designed to characterize the activity level of oscillations. The wavelet packet coefficients sparsely represented the activity level of theta and alpha oscillations in local field potentials (LFPs). Then, a state discrimination model was designed to calculate an adaptive threshold to determine the activity level of oscillations. Finally, the neural state was represented by the activity levels of both theta and alpha oscillations. The relationship between neural states and pain relief was further evaluated. The performance of the state identification approach achieved sensitivity and specificity beyond 80% in simulation signals. Neural states of the PVAG and VPL were dynamically identified from LFPs of neuropathic pain patients. The occurrence of neural states based on theta and alpha oscillations were correlated to the degree of pain relief by deep brain stimulation. In the PVAG LFPs, the occurrence of the state with high activity levels of theta oscillations independent of alpha and the state with low-level alpha and high-level theta oscillations were significantly correlated with pain relief by deep brain stimulation. This study provides a reliable approach to identifying the dynamic neural states in LFPs with a low signal-to-noise ratio by using sparse representation based on wavelet packet transform. Furthermore, it may advance closed-loop deep brain stimulation based on neural states integrating multiple neural oscillations. PMID:29695951

Control of nonlinear systems with applications to constrained robots and spacecraft attitude stabilization

NASA Technical Reports Server (NTRS)

Krishnan, Hariharan

1993-01-01

This thesis is organized in two parts. In Part 1, control systems described by a class of nonlinear differential and algebraic equations are introduced. A procedure for local stabilization based on a local state realization is developed. An alternative approach to local stabilization is developed based on a classical linearization of the nonlinear differential-algebraic equations. A theoretical framework is established for solving a tracking problem associated with the differential-algebraic system. First, a simple procedure is developed for the design of a feedback control law which ensures, at least locally, that the tracking error in the closed loop system lies within any given bound if the reference inputs are sufficiently slowly varying. Next, by imposing additional assumptions, a procedure is developed for the design of a feedback control law which ensures that the tracking error in the closed loop system approaches zero exponentially for reference inputs which are not necessarily slowly varying. The control design methodologies are used for simultaneous force and position control in constrained robot systems. The differential-algebraic equations are shown to characterize the slow dynamics of a certain nonlinear control system in nonstandard singularly perturbed form. In Part 2, the attitude stabilization (reorientation) of a rigid spacecraft using only two control torques is considered. First, the case of momentum wheel actuators is considered. The complete spacecraft dynamics are not controllable. However, the spacecraft dynamics are small time locally controllable in a reduced sense. The reduced spacecraft dynamics cannot be asymptotically stabilized using continuous feedback, but a discontinuous feedback control strategy is constructed. Next, the case of gas jet actuators is considered. If the uncontrolled principal axis is not an axis of symmetry, the complete spacecraft dynamics are small time locally controllable. However, the spacecraft attitude cannot be asymptotically stabilized using continuous feedback, but a discontinuous stabilizing feedback control strategy is constructed. If the uncontrolled principal axis is an axis of symmetry, the complete spacecraft dynamics cannot be stabilized. However, the spacecraft dynamics are small time locally controllable in a reduced sense. The reduced spacecraft dynamics cannot be asymptotically stabilized using continuous feedback, but again a discontinuous feedback control strategy is constructed.

Intrachain exciton dynamics in conjugated polymer chains in solution.

PubMed

Tozer, Oliver Robert; Barford, William

2015-08-28

We investigate exciton dynamics on a polymer chain in solution induced by the Brownian rotational motion of the monomers. Poly(para-phenylene) is chosen as the model system and excitons are modeled via the Frenkel exciton Hamiltonian. The Brownian fluctuations of the torsional modes were modeled via the Langevin equation. The rotation of monomers in polymer chains in solution has a number of important consequences for the excited state properties. First, the dihedral angles assume a thermal equilibrium which causes off-diagonal disorder in the Frenkel Hamiltonian. This disorder Anderson localizes the Frenkel exciton center-of-mass wavefunctions into super-localized local exciton ground states (LEGSs) and higher-energy more delocalized quasi-extended exciton states (QEESs). LEGSs correspond to chromophores on polymer chains. The second consequence of rotations-that are low-frequency-is that their coupling to the exciton wavefunction causes local planarization and the formation of an exciton-polaron. This torsional relaxation causes additional self-localization. Finally, and crucially, the torsional dynamics cause the Frenkel Hamiltonian to be time-dependent, leading to exciton dynamics. We identify two distinct types of dynamics. At low temperatures, the torsional fluctuations act as a perturbation on the polaronic nature of the exciton state. Thus, the exciton dynamics at low temperatures is a small-displacement diffusive adiabatic motion of the exciton-polaron as a whole. The temperature dependence of the diffusion constant has a linear dependence, indicating an activationless process. As the temperature increases, however, the diffusion constant increases at a faster than linear rate, indicating a second non-adiabatic dynamics mechanism begins to dominate. Excitons are thermally activated into higher energy more delocalized exciton states (i.e., LEGSs and QEESs). These states are not self-localized by local torsional planarization. During the exciton's temporary occupation of a LEGS-and particularly a quasi-band QEES-its motion is semi-ballistic with a large group velocity. After a short period of rapid transport, the exciton wavefunction collapses again into an exciton-polaron state. We present a simple model for the activated dynamics which is in agreement with the data.

Relativistic Fluid Dynamics Far From Local Equilibrium

NASA Astrophysics Data System (ADS)

Romatschke, Paul

2018-01-01

Fluid dynamics is traditionally thought to apply only to systems near local equilibrium. In this case, the effective theory of fluid dynamics can be constructed as a gradient series. Recent applications of resurgence suggest that this gradient series diverges, but can be Borel resummed, giving rise to a hydrodynamic attractor solution which is well defined even for large gradients. Arbitrary initial data quickly approaches this attractor via nonhydrodynamic mode decay. This suggests the existence of a new theory of far-from-equilibrium fluid dynamics. In this Letter, the framework of fluid dynamics far from local equilibrium for a conformal system is introduced, and the hydrodynamic attractor solutions for resummed Baier-Romatschke-Son-Starinets-Stephanov theory, kinetic theory in the relaxation time approximation, and strongly coupled N =4 super Yang-Mills theory are identified for a system undergoing Bjorken flow.

Analyzing the Possibility of Dynamic Earthquake Triggering in Socorro, New Mexico

NASA Astrophysics Data System (ADS)

Morton, E.; Bilek, S. L.

2011-12-01

The release of energy during an earthquake changes the stress state and seismicity both locally and remotely. Far-field stress changes can lead to triggered earthquakes coinciding with the arrival of the surface waves. This dynamic triggering is found to occur in a variety of tectonic settings, but in particular magmatic regions. Here we test whether the Socorro Magma Body region in central New Mexico hosts triggered seismicity. Preliminary inspection of continuous network data in central New Mexico suggested a local triggered event with the passage of surface waves from an MW 6.9 event in 2009. For a more comprehensive view, we examine data from 379 earthquakes MW ≥ 6.0 between January 15, 2008 to March 13, 2010 recorded on the EarthScope USArray Transportable Network stations located within New Mexico and providing more dense coverage for better detectability. Waveforms from twenty EarthScope stations were windowed around the time of the large event, high-pass filtered at 5 Hz to remove low frequency signals and analyzed to detect high frequency triggered local earthquakes. For each possible trigger detected, waveforms from nine short-period stations in the Socorro Seismic Network were added to aid in locating the events. In the time period analyzed, twelve triggered events were detected. Only one of these events, on August 30, 2009, corresponded to the arrival of surface waves, occurring about a minute after their arrival. The majority of the triggered events occur well after the arrival of the surface waves, indicating that they are either independent of the main shock or the result of delayed dynamic triggering. Delayed dynamic triggering can occur hours or days after the passage of surface waves, and are marked by an increase in seismicity relative to background. Only one of the events, on September 18, 2009, occurred within the Socorro Magma Body area. The rest of these events occur spread throughout New Mexico. The widely spread distribution of possibly triggered events and the low ratio of triggers to main shocks indicates that the rifted magmatic region above the Socorro Magma Body is not particularly susceptible to dynamic triggering from remote main shocks. The lack of direct correspondence to a seismic phase can mean that the detected events may be independent (not triggered events), or the result of delayed dynamic triggering. A comparison to randomly chosen waveforms within the time period as background will reveal if the possible events are a result of delayed dynamic triggering or part of the background.

Independent Metrics for Protein Backbone and Side-Chain Flexibility: Time Scales and Effects of Ligand Binding.

PubMed

Fuchs, Julian E; Waldner, Birgit J; Huber, Roland G; von Grafenstein, Susanne; Kramer, Christian; Liedl, Klaus R

2015-03-10

Conformational dynamics are central for understanding biomolecular structure and function, since biological macromolecules are inherently flexible at room temperature and in solution. Computational methods are nowadays capable of providing valuable information on the conformational ensembles of biomolecules. However, analysis tools and intuitive metrics that capture dynamic information from in silico generated structural ensembles are limited. In standard work-flows, flexibility in a conformational ensemble is represented through residue-wise root-mean-square fluctuations or B-factors following a global alignment. Consequently, these approaches relying on global alignments discard valuable information on local dynamics. Results inherently depend on global flexibility, residue size, and connectivity. In this study we present a novel approach for capturing positional fluctuations based on multiple local alignments instead of one single global alignment. The method captures local dynamics within a structural ensemble independent of residue type by splitting individual local and global degrees of freedom of protein backbone and side-chains. Dependence on residue type and size in the side-chains is removed via normalization with the B-factors of the isolated residue. As a test case, we demonstrate its application to a molecular dynamics simulation of bovine pancreatic trypsin inhibitor (BPTI) on the millisecond time scale. This allows for illustrating different time scales of backbone and side-chain flexibility. Additionally, we demonstrate the effects of ligand binding on side-chain flexibility of three serine proteases. We expect our new methodology for quantifying local flexibility to be helpful in unraveling local changes in biomolecular dynamics.

A microcosm of musical expression: II. Quantitative analysis of pianists' dynamics in the initial measures of Chopin's Etude in E major.

PubMed

Repp, B H

1999-03-01

Patterns of expressive dynamics were measured in bars 1-5 of 115 commercially recorded performances of Chopin's Etude in E major, op. 10, No. 3. The grand average pattern (or dynamic profile) was representative of many performances and highly similar to the average dynamic profile of a group of advanced student performances, which suggests a widely shared central norm of expressive dynamics. The individual dynamic profiles were subjected to principal components analysis, which yielded Varimax-rotated components, each representing a different, nonstandard dynamic profile associated with a small subset of performances. Most performances had dynamic patterns resembling a mixture of several components, and no clustering of of performances into distinct groups was apparent. Some weak relationships of dynamic profiles with sociocultural variables were found, most notably a tendency of female pianists to exhibit a greater dynamic range in the melody. Within the melody, there were no significant relationships between expressive timing [Repp, J. Acoust. Soc. Am. 104, 1085-1100 (1998)] and expressive dynamics. These two important dimensions seemed to be controlled independently at this local level and thus offer the artist many degrees of freedom in giving a melody expressive shape.

Demystifying the Complexities of Gravity Wave Dynamics in the Middle Atmosphere: a Roadmap to Improved Weather Forecasts through High-Fidelity Modeling

NASA Astrophysics Data System (ADS)

Mixa, T.; Fritts, D. C.; Bossert, K.; Laughman, B.; Wang, L.; Lund, T.; Kantha, L. H.

2017-12-01

Gravity waves play a profound role in the mixing of the atmosphere, transporting vast amounts of momentum and energy among different altitudes as they propagate vertically. Above 60km in the middle atmosphere, high wave amplitudes enable a series of complex, nonlinear interactions with the background environment that produce highly-localized wind and temperature variations which alter the layering structure of the atmosphere. These small-scale interactions account for a significant portion of energy transport in the middle atmosphere, but they are difficult to characterize, occurring at spatial scales that are both challenging to observe with ground instruments and prohibitively small to include in weather forecasting models. Using high fidelity numerical simulations, these nuanced wave interactions are analyzed to better our understanding of these dynamics and improve the accuracy of long-term weather forecasting.

Microscale Spatiotemporal Dynamics during Neocortical Propagation of Human Focal Seizures

PubMed Central

Wagner, Fabien B.; Eskandar, Emad N.; Cosgrove, G. Rees; Madsen, Joseph R.; Blum, Andrew S.; Potter, N. Stevenson; Hochberg, Leigh R.; Cash, Sydney S.; Truccolo, Wilson

2015-01-01

Some of the most clinically consequential aspects of focal epilepsy, e.g. loss of consciousness, arise from the generalization or propagation of seizures through local and large-scale neocortical networks. Yet, the dynamics of such neocortical propagation remain poorly understood. Here, we studied the microdynamics of focal seizure propagation in neocortical patches (4 × 4 mm) recorded via high-density microelectrode arrays (MEAs) implanted in people with pharmacologically resistant epilepsy. Our main findings are threefold: (1) A newly developed stage segmentation method, applied to local field potentials (LFPs) and multi-unit activity (MUA), revealed a succession of discrete seizure stages, each lasting several seconds. These different stages showed characteristic evolutions in overall activity and spatial patterns, which were relatively consistent across seizures within each of the 5 patients studied. Interestingly, segmented seizure stages based on LFPs or MUA showed a dissociation of their spatiotemporal dynamics, likely reflecting different contributions of non-local synaptic inputs and local network activity. (2) As previously reported, some of the seizures showed a peak in MUA that happened several seconds after local seizure onset and slowly propagated across the MEA. However, other seizures had a more complex structure characterized by, for example, several MUA peaks, more consistent with the succession of discrete stages than the slow propagation of a simple wavefront of increased MUA. In both cases, nevertheless, seizures characterized by spike-wave discharges (SWDs, ~ 2–3Hz) eventually evolved into patterns of phase-locked MUA and LFPs. (3) Individual SWDs or gamma oscillation cycles (25–60 Hz), characteristic of two different types of recorded seizures, tended to propagate with varying degrees of directionality, directions of propagation and speeds, depending on the identified seizure stage. However, no clear relationship was observed between the MUA peak onset time (in seizures where such peak onset occurred) and changes in MUA or LFP propagation patterns. Overall, our findings indicate that the recruitment of neocortical territories into ictal activity undergo complex spatiotemporal dynamics evolving in slow discrete states, which are consistent across seizures within each patient. Furthermore, ictal states at finer spatiotemporal scales (individual SWDs or gamma oscillations) are organized by slower time-scale network dynamics evolving through these discrete stages. PMID:26279211

Eco-evolutionary spatial dynamics in the Glanville fritillary butterfly

PubMed Central

Hanski, Ilkka A.

2011-01-01

Demographic population dynamics, gene flow, and local adaptation may influence each other and lead to coupling of ecological and evolutionary dynamics, especially in species inhabiting fragmented heterogeneous environments. Here, I review long-term research on eco-evolutionary spatial dynamics in the Glanville fritillary butterfly inhabiting a large network of approximately 4,000 meadows in Finland. The metapopulation persists in a balance between frequent local extinctions and recolonizations. The genetic spatial structure as defined by neutral markers is much more coarse-grained than the demographic spatial structure determined by the fragmented habitat, yet small-scale spatial structure has important consequences for the dynamics. I discuss three examples of eco-evolutionary spatial dynamics. (i) Extinction-colonization metapopulation dynamics influence allele frequency changes in the phosphoglucose isomerase (Pgi) gene, which leads to strong associations between genetic variation in Pgi and dispersal, recolonization, and local population dynamics. (ii) Inbreeding in local populations increases their risk for extinction, whereas reciprocal effects between inbreeding, population size, and emigration represent likely eco-evolutionary feedbacks. (iii) Genetically determined female oviposition preference for two host plant species exhibits a cline paralleling a gradient in host plant relative abundances, and host plant preference of dispersing females in relation to the host plant composition of habitat patches influences immigration (gene flow) and recolonization (founder events). Eco-evolutionary spatial dynamics in heterogeneous environments may not lead to directional evolutionary changes unless the environment itself changes, but eco-evolutionary dynamics may contribute to the maintenance of genetic variation attributable to fluctuating selection in space and time. PMID:21788506

Robotics and local fusion

NASA Astrophysics Data System (ADS)

Emmerman, Philip J.

2005-05-01

Teams of robots or mixed teams of warfighters and robots on reconnaissance and other missions can benefit greatly from a local fusion station. A local fusion station is defined here as a small mobile processor with interfaces to enable the ingestion of multiple heterogeneous sensor data and information streams, including blue force tracking data. These data streams are fused and integrated with contextual information (terrain features, weather, maps, dynamic background features, etc.), and displayed or processed to provide real time situational awareness to the robot controller or to the robots themselves. These blue and red force fusion applications remove redundancies, lessen ambiguities, correlate, aggregate, and integrate sensor information with context such as high resolution terrain. Applications such as safety, team behavior, asset control, training, pattern analysis, etc. can be generated or enhanced by these fusion stations. This local fusion station should also enable the interaction between these local units and a global information world.

Unraveling strong dynamics with the fifth dimension

NASA Astrophysics Data System (ADS)

Batell, Brian Thomas

Theories with strong gauge dynamics, such as quantum chromodynamics and technicolor, have evaded analytic solutions despite more than thirty years of efforts on the part of elementary particle theorists. Holography refers to methods inspired by the AdS/CFT correspondence in string theory to understand gauge theories in the nonperturbative regime using extra dimensions. The studies presented in this thesis describe new applications of holography to models of electroweak symmetry breaking and quantum chromodynamics. The four-dimensional holographic description of the Randall-Sundrum model, or warped extra dimension, is a theory of electroweak symmetry breaking with strong gauge dynamics, similar to technicolor or composite Higgs theories. A new tool, the holographic basis, is presented that allows one to quantitatively characterize the mixing between the elementary and composite states in the holographic theory. An exploration of localized gauge fields in the Randall-Sundrum framework is detailed, focusing on both theoretical and phenomenological issues. The holographic dual interpretation of localized gauge bosons is also derived. Bottom-up holographic approaches to quantum chromodynamics, referred to as AdS/QCD, describe the observed properties of mesons reasonably well. In models with a soft infrared wall, Regge trajectories for high radial and spin states can also be obtained. A dynamical soft-wall AdS/QCD model is described, and the implications for top-down string constructions are discussed.

Probing the solvation structure and dynamics in ionic liquids by time-resolved infrared spectroscopy of 4-(dimethylamino)benzonitrile.

PubMed

Ando, Rômulo A; Brown-Xu, Samantha E; Nguyen, Lisa N Q; Gustafson, Terry L

2017-09-20

In this work we demonstrate the use of the push-pull model system 4-(dimethylamino)benzonitrile (DMABN) as a convenient molecular probe to investigate the local solvation structure and dynamics by means of time-resolved infrared spectroscopy (TRIR). The photochemical features associated with this system provide several advantages due to the high charge separation between the ground and charge transfer states involving the characteristic nitrile bond, and an excited state lifetime that is long enough to observe the slow solvation dynamics in organic solvents and ionic liquids. The conversion from a locally excited state to an intramolecular charge transfer state (LE-ICT) in ionic liquids shows similar kinetic lifetimes in comparison to organic solvents. This similarity confirms that such conversion depends solely on the intramolecular reorganization of DMABN in the excited state, and not by the dynamics of solvation. In contrast, the relative shift of the ν(CN) vibration during the relaxation of the ICT state reveals two distinct lifetimes that are sensitive to the solvent environment. This study reveals a fast time component which is attributed to the dipolar relaxation of the solvent and a slower time component related to the rotation of the dimethylamino group of DMABN.

CCN numerical simulations for the GoAmazon with the OLAM model

NASA Astrophysics Data System (ADS)

Ramos-da-Silva, R.; Haas, R.; Barbosa, H. M.; Machado, L.

2015-12-01

Manaus is a large city in the center of the Amazon rainforest. The GoAmazon field project is exploring the region through various data collection and modeling to investigate in impacts of the urban polluted plume on the surrounding pristine areas. In this study a numerical model was applied to simulate the atmospheric dynamics and the Cloud Condensation Nucleai (CCN) concentrations evolution. Simulations with and without the urban plume was performed to identify its dynamics and local impacts. The results show that the land surface characteristics has important hole on the CCN distribution and rainfall over the region. At the south of Manaus the atmospheric dynamics is dominated by the cloud streets that are aligned with the trade winds and the Amazon River. At the north of Manaus, the Negro River produces the advection of a more stable atmosphere causing a higher CCN concentration on the boundary layer. Assuming a local high CCN concentration at the Manaus boundary layer region, the simulations show that the land-atmosphere interaction sets important dynamics on the plume. The model shows that the CCN plume moves along with the flow towards southwest of Manaus following the cloud streets and the river direction having the highest concentrations over the most stable water surface regions.

A Continuum Model of Actin Waves in Dictyostelium discoideum

PubMed Central

Khamviwath, Varunyu; Hu, Jifeng; Othmer, Hans G.

2013-01-01

Actin waves are complex dynamical patterns of the dendritic network of filamentous actin in eukaryotes. We developed a model of actin waves in PTEN-deficient Dictyostelium discoideum by deriving an approximation of the dynamics of discrete actin filaments and combining it with a signaling pathway that controls filament branching. This signaling pathway, together with the actin network, contains a positive feedback loop that drives the actin waves. Our model predicts the structure, composition, and dynamics of waves that are consistent with existing experimental evidence, as well as the biochemical dependence on various protein partners. Simulation suggests that actin waves are initiated when local actin network activity, caused by an independent process, exceeds a certain threshold. Moreover, diffusion of proteins that form a positive feedback loop with the actin network alone is sufficient for propagation of actin waves at the observed speed of . Decay of the wave back can be caused by scarcity of network components, and the shape of actin waves is highly dependent on the filament disassembly rate. The model allows retraction of actin waves and captures formation of new wave fronts in broken waves. Our results demonstrate that a delicate balance between a positive feedback, filament disassembly, and local availability of network components is essential for the complex dynamics of actin waves. PMID:23741312

Comminution of solids caused by kinetic energy of high shear strain rate, with implications for impact, shock, and shale fracturing

PubMed Central

Bažant, Zdeněk P.; Caner, Ferhun C.

2013-01-01

Although there exists a vast literature on the dynamic comminution or fragmentation of rocks, concrete, metals, and ceramics, none of the known models suffices for macroscopic dynamic finite element analysis. This paper outlines the basic idea of the macroscopic model. Unlike static fracture, in which the driving force is the release of strain energy, here the essential idea is that the driving force of comminution under high-rate compression is the release of the local kinetic energy of shear strain rate. The density of this energy at strain rates >1,000/s is found to exceed the maximum possible strain energy density by orders of magnitude, making the strain energy irrelevant. It is shown that particle size is proportional to the −2/3 power of the shear strain rate and the 2/3 power of the interface fracture energy or interface shear stress, and that the comminution process is macroscopically equivalent to an apparent shear viscosity that is proportional (at constant interface stress) to the −1/3 power of this rate. A dimensionless indicator of the comminution intensity is formulated. The theory was inspired by noting that the local kinetic energy of shear strain rate plays a role analogous to the local kinetic energy of eddies in turbulent flow. PMID:24218624

SuBSENSE: a universal change detection method with local adaptive sensitivity.

PubMed

St-Charles, Pierre-Luc; Bilodeau, Guillaume-Alexandre; Bergevin, Robert

2015-01-01

Foreground/background segmentation via change detection in video sequences is often used as a stepping stone in high-level analytics and applications. Despite the wide variety of methods that have been proposed for this problem, none has been able to fully address the complex nature of dynamic scenes in real surveillance tasks. In this paper, we present a universal pixel-level segmentation method that relies on spatiotemporal binary features as well as color information to detect changes. This allows camouflaged foreground objects to be detected more easily while most illumination variations are ignored. Besides, instead of using manually set, frame-wide constants to dictate model sensitivity and adaptation speed, we use pixel-level feedback loops to dynamically adjust our method's internal parameters without user intervention. These adjustments are based on the continuous monitoring of model fidelity and local segmentation noise levels. This new approach enables us to outperform all 32 previously tested state-of-the-art methods on the 2012 and 2014 versions of the ChangeDetection.net dataset in terms of overall F-Measure. The use of local binary image descriptors for pixel-level modeling also facilitates high-speed parallel implementations: our own version, which used no low-level or architecture-specific instruction, reached real-time processing speed on a midlevel desktop CPU. A complete C++ implementation based on OpenCV is available online.

Indole Localization in an Explicit Bilayer Revealed via Molecular Dynamics

NASA Astrophysics Data System (ADS)

Norman, Kristen

2005-11-01

It is well known that the amino-acid tryptophan is particularly stable in the interfacial region of biological membranes, and this preference is a property of the tryptophan side-chain. Analogues of this side-chain, such as indole, strongly localize in the interfacial region, especially near the glycerol moiety of the lipids in the bilayer. Using molecular dynamics calculations, we determine the potential of mean force (PMF) for indoles in the bilayer. We compare the calculated PMF for indole with that of benzene to show that exclusion from the center of the lipid bilayer does not occur in all aromatics, but is strong in indoles. We find three minima in the PMF. Indole is most stabilized near the glycerol moiety. A weaker binding location is found near the choline groups of the lipid molecules. An even weaker binding side is found near the center of the lipid hydrocarbon core. Comparisions between uncharged, weakly charged, and highly charged indoles demonstrate that the exclusion is caused by the charge distribution on the indole rather than the ``lipo-phobic'' effect. High temperature simulations are used to determine the relative contribution of enthalpy and entropy to indole localization. The orientation of indole is found to be largely charge independent and is a strong function of depth within the bilayer. We find good agreement between simulated SCD order parameters for indole and experimentally determined order parameters.

Anomalous diffusion in a dynamical optical lattice

NASA Astrophysics Data System (ADS)

Zheng, Wei; Cooper, Nigel R.

2018-02-01

Motivated by experimental progress in strongly coupled atom-photon systems in optical cavities, we study theoretically the quantum dynamics of atoms coupled to a one-dimensional dynamical optical lattice. The dynamical lattice is chosen to have a period that is incommensurate with that of an underlying static lattice, leading to a dynamical version of the Aubry-André model which can cause localization of single-particle wave functions. We show that atomic wave packets in this dynamical lattice generically spread via anomalous diffusion, which can be tuned between superdiffusive and subdiffusive regimes. This anomalous diffusion arises from an interplay between Anderson localization and quantum fluctuations of the cavity field.

Direct Observation of Individual Charges and Their Dynamics on Graphene by Low-Energy Electron Holography.

PubMed

Latychevskaia, Tatiana; Wicki, Flavio; Longchamp, Jean-Nicolas; Escher, Conrad; Fink, Hans-Werner

2016-09-14

Visualizing individual charges confined to molecules and observing their dynamics with high spatial resolution is a challenge for advancing various fields in science, ranging from mesoscopic physics to electron transfer events in biological molecules. We show here that the high sensitivity of low-energy electrons to local electric fields can be employed to directly visualize individual charged adsorbates and to study their behavior in a quantitative way. This makes electron holography a unique probing tool for directly visualizing charge distributions with a sensitivity of a fraction of an elementary charge. Moreover, spatial resolution in the nanometer range and fast data acquisition inherent to lens-less low-energy electron holography allows for direct visual inspection of charge transfer processes.

Preparing and probing many-body correlated systems in a Quantum Gas Microscope by engineering arbitrary landscape potentials

NASA Astrophysics Data System (ADS)

Rispoli, Matthew; Lukin, Alexander; Ma, Ruichao; Preiss, Philipp; Tai, M. Eric; Islam, Rajibul; Greiner, Markus

2015-05-01

Ultracold atoms in optical lattices provide a versatile tool box for observing the emergence of strongly correlated physics in quantum systems. Dynamic control of optical potentials on the single-site level allows us to prepare and probe many-body quantum states through local Hamiltonian engineering. We achieve these high precision levels of optical control through spatial light modulation with a DMD (digital micro-mirror device). This allows for both arbitrary beam shaping and aberration compensation in our imaging system to produce high fidelity optical potentials. We use these techniques to control state initialization, Hamiltonian dynamics, and measurement in experiments investigating low-dimensional many-body physics - from one-dimensional correlated quantum walks to characterizing entanglement.

A High-Speed, Event-Driven, Active Pixel Sensor Readout for Photon-Counting Microchannel Plate Detectors

NASA Technical Reports Server (NTRS)

Kimble, Randy A.; Pain, B.; Norton, T. J.; Haas, P.; Fisher, Richard R. (Technical Monitor)

2001-01-01

Silicon array readouts for microchannel plate intensifiers offer several attractive features. In this class of detector, the electron cloud output of the MCP intensifier is converted to visible light by a phosphor; that light is then fiber-optically coupled to the silicon array. In photon-counting mode, the resulting light splashes on the silicon array are recognized and centroided to fractional pixel accuracy by off-chip electronics. This process can result in very high (MCP-limited) spatial resolution for the readout while operating at a modest MCP gain (desirable for dynamic range and long term stability). The principal limitation of intensified CCD systems of this type is their severely limited local dynamic range, as accurate photon counting is achieved only if there are not overlapping event splashes within the frame time of the device. This problem can be ameliorated somewhat by processing events only in pre-selected windows of interest or by using an addressable charge injection device (CID) for the readout array. We are currently pursuing the development of an intriguing alternative readout concept based on using an event-driven CMOS Active Pixel Sensor. APS technology permits the incorporation of discriminator circuitry within each pixel. When coupled with suitable CMOS logic outside the array area, the discriminator circuitry can be used to trigger the readout of small sub-array windows only when and where an event splash has been detected, completely eliminating the local dynamic range problem, while achieving a high global count rate capability and maintaining high spatial resolution. We elaborate on this concept and present our progress toward implementing an event-driven APS readout.

Ratchet effect in the quantum kicked rotor and its destruction by dynamical localization

NASA Astrophysics Data System (ADS)

Hainaut, Clément; Rançon, Adam; Clément, Jean-François; Garreau, Jean Claude; Szriftgiser, Pascal; Chicireanu, Radu; Delande, Dominique

2018-06-01

We study experimentally a quantum kicked rotor with broken parity symmetry, supporting a ratchet effect due to the presence of a classical accelerator mode. We show that the short-time dynamics is very well described by the classical dynamics, characterized by a strongly asymmetric momentum distribution with directed motion on one side, and an anomalous diffusion on the other. At longer times, quantum effects lead to dynamical localization, causing an asymptotic resymmetrization of the wave function.

Dynamic Contact Angle at the Nanoscale: A Unified View.

PubMed

Lukyanov, Alex V; Likhtman, Alexei E

2016-06-28

Generation of a dynamic contact angle in the course of wetting is a fundamental phenomenon of nature. Dynamic wetting processes have a direct impact on flows at the nanoscale, and therefore, understanding them is exceptionally important to emerging technologies. Here, we reveal the microscopic mechanism of dynamic contact angle generation. It has been demonstrated using large-scale molecular dynamics simulations of bead-spring model fluids that the main cause of local contact angle variations is the distribution of microscopic force acting at the contact line region. We were able to retrieve this elusive force with high accuracy. It has been directly established that the force distribution can be solely predicted on the basis of a general friction law for liquid flow at solid surfaces by Thompson and Troian. The relationship with the friction law provides both an explanation of the phenomenon of dynamic contact angle and a methodology for future predictions. The mechanism is intrinsically microscopic, universal, and irreducible and is applicable to a wide range of problems associated with wetting phenomena.

Spatial Selection and Local Adaptation Jointly Shape Life-History Evolution during Range Expansion.

PubMed

Van Petegem, Katrien H P; Boeye, Jeroen; Stoks, Robby; Bonte, Dries

2016-11-01

In the context of climate change and species invasions, range shifts increasingly gain attention because the rates at which they occur in the Anthropocene induce rapid changes in biological assemblages. During range shifts, species experience multiple selection pressures. For poleward expansions in particular, it is difficult to interpret observed evolutionary dynamics because of the joint action of evolutionary processes related to spatial selection and to adaptation toward local climatic conditions. To disentangle the effects of these two processes, we integrated stochastic modeling and data from a common garden experiment, using the spider mite Tetranychus urticae as a model species. By linking the empirical data with those derived form a highly parameterized individual-based model, we infer that both spatial selection and local adaptation contributed to the observed latitudinal life-history divergence. Spatial selection best described variation in dispersal behavior, while variation in development was best explained by adaptation to the local climate. Divergence in life-history traits in species shifting poleward could consequently be jointly determined by contemporary evolutionary dynamics resulting from adaptation to the environmental gradient and from spatial selection. The integration of modeling with common garden experiments provides a powerful tool to study the contribution of these evolutionary processes on life-history evolution during range expansion.

A non-local structural derivative model for characterization of ultraslow diffusion in dense colloids

NASA Astrophysics Data System (ADS)

Liang, Yingjie; Chen, Wen

2018-03-01

Ultraslow diffusion has been observed in numerous complicated systems. Its mean squared displacement (MSD) is not a power law function of time, but instead a logarithmic function, and in some cases grows even more slowly than the logarithmic rate. The distributed-order fractional diffusion equation model simply does not work for the general ultraslow diffusion. Recent study has used the local structural derivative to describe ultraslow diffusion dynamics by using the inverse Mittag-Leffler function as the structural function, in which the MSD is a function of inverse Mittag-Leffler function. In this study, a new stretched logarithmic diffusion law and its underlying non-local structural derivative diffusion model are proposed to characterize the ultraslow diffusion in aging dense colloidal glass at both the short and long waiting times. It is observed that the aging dynamics of dense colloids is a class of the stretched logarithmic ultraslow diffusion processes. Compared with the power, the logarithmic, and the inverse Mittag-Leffler diffusion laws, the stretched logarithmic diffusion law has better precision in fitting the MSD of the colloidal particles at high densities. The corresponding non-local structural derivative diffusion equation manifests clear physical mechanism, and its structural function is equivalent to the first-order derivative of the MSD.

Local dynamics of glass-forming polystyrene thin films from atomistic simulation

NASA Astrophysics Data System (ADS)

Zhou, Yuxing; Milner, Scott

Despite a wide technological application ranging from protective coatings to organic solar cells, there still no consensus on the mechanism for the glass transition in polymer thin films a manifestation of the infamous glass problem under confinement. Many experimental and computational studies have observed a large deviation of nanoscale dynamical properties in thin films from the corresponding properties in bulk. In this work, we perform extensive united-atom simulations on atactic polystyrene free-standing thin films near the glass transition temperature and focus on the effect of free surface on the local dynamics. We study the segmental dynamics as a function of distance from the surface for different temperatures, from which relaxation time and thereby local Tg is obtained for each layer. We find the dynamics near free surface is not only enhanced but becomes less strongly temperature dependent as Tg is approached compared to the bulk. We find an increasing length scale associated with mobility propagation from the free surface as temperature decreases, but no correlation between local structure and enhanced relaxation rates near the surface, consistent with studies on bead-spring chains.

Towards self-correcting quantum memories

NASA Astrophysics Data System (ADS)

Michnicki, Kamil

This thesis presents a model of self-correcting quantum memories where quantum states are encoded using topological stabilizer codes and error correction is done using local measurements and local dynamics. Quantum noise poses a practical barrier to developing quantum memories. This thesis explores two types of models for suppressing noise. One model suppresses thermalizing noise energetically by engineering a Hamiltonian with a high energy barrier between code states. Thermalizing dynamics are modeled phenomenologically as a Markovian quantum master equation with only local generators. The second model suppresses stochastic noise with a cellular automaton that performs error correction using syndrome measurements and a local update rule. Several ways of visualizing and thinking about stabilizer codes are presented in order to design ones that have a high energy barrier: the non-local Ising model, the quasi-particle graph and the theory of welded stabilizer codes. I develop the theory of welded stabilizer codes and use it to construct a code with the highest known energy barrier in 3-d for spin Hamiltonians: the welded solid code. Although the welded solid code is not fully self correcting, it has some self correcting properties. It has an increased memory lifetime for an increased system size up to a temperature dependent maximum. One strategy for increasing the energy barrier is by mediating an interaction with an external system. I prove a no-go theorem for a class of Hamiltonians where the interaction terms are local, of bounded strength and commute with the stabilizer group. Under these conditions the energy barrier can only be increased by a multiplicative constant. I develop cellular automaton to do error correction on a state encoded using the toric code. The numerical evidence indicates that while there is no threshold, the model can extend the memory lifetime significantly. While of less theoretical importance, this could be practical for real implementations of quantum memories. Numerical evidence also suggests that the cellular automaton could function as a decoder with a soft threshold.

Self-consistent approach to many-body localization and subdiffusion

NASA Astrophysics Data System (ADS)

Prelovšek, P.; Herbrych, J.

2017-07-01

An analytical theory, based on the perturbative treatment of the disorder and extended into a self-consistent set of equations for the dynamical density correlations, is developed and applied to the prototype one-dimensional model of many-body localization. Results show a qualitative agreement with the numerically obtained dynamical structure factor in the whole range of frequencies and wave vectors, as well as across the transition to nonergodic behavior. The theory reveals the singular nature of the one-dimensional problem, whereby on the ergodic side the dynamics is subdiffusive with dynamical conductivity σ (ω ) ∝|ω| α , i.e., with vanishing dc limit σ0=0 and α <1 varying with disorder, while we get α >1 in the localized phase.

Conformal Killing horizons and their thermodynamics

NASA Astrophysics Data System (ADS)

Nielsen, Alex B.; Shoom, Andrey A.

2018-05-01

Certain dynamical black hole solutions can be mapped to static spacetimes by conformal metric transformations. This mapping provides a physical link between the conformal Killing horizon of the dynamical black hole and the Killing horizon of the static spacetime. Using the Vaidya spacetime as an example, we show how this conformal relation can be used to derive thermodynamic properties of such dynamical black holes. Although these horizons are defined quasi-locally and can be located by local experiments, they are distinct from other popular notions of quasi-local horizons such as apparent horizons. Thus in the dynamical Vaidya spacetime describing constant accretion of null dust, the conformal Killing horizon, which is null by construction, is the natural horizon to describe the black hole.

Model of chromosomal loci dynamics in bacteria as fractional diffusion with intermittent transport

NASA Astrophysics Data System (ADS)

Gherardi, Marco; Calabrese, Ludovico; Tamm, Mikhail; Cosentino Lagomarsino, Marco

2017-10-01

The short-time dynamics of bacterial chromosomal loci is a mixture of subdiffusive and active motion, in the form of rapid relocations with near-ballistic dynamics. While previous work has shown that such rapid motions are ubiquitous, we still have little grasp on their physical nature, and no positive model is available that describes them. Here, we propose a minimal theoretical model for loci movements as a fractional Brownian motion subject to a constant but intermittent driving force, and compare simulations and analytical calculations to data from high-resolution dynamic tracking in E. coli. This analysis yields the characteristic time scales for intermittency. Finally, we discuss the possible shortcomings of this model, and show that an increase in the effective local noise felt by the chromosome associates to the active relocations.

The Significance of Charter Schools and the Privatization of Standards: Holding the Wolf by the Ears

ERIC Educational Resources Information Center

Ford, Brian

2005-01-01

The dynamics of educational policy discourse in the USA are illustrated by the highly contested positions on charter schools in three arenas: media debates, national policy and local school reform. In media debates, civil society actors--including teachers' unions, think tanks and print media--engage in polarized exchanges notable for their…

Kin and Youths in the Social Networks of Youth-Headed Households in Namibia

ERIC Educational Resources Information Center

Ruiz-Casares, Monica

2010-01-01

In settings highly affected by HIV/AIDS, households headed by children may result from strained family relations, poverty, and stigma associated with the disease. Understanding local systems and dynamics of support is essential to planning comprehensive models of care. This study measured size and composition of the support and conflict networks…

Business-Led Coalitions: Aligning Supply and Demand in Workforce Development. Workforce Brief #9.

ERIC Educational Resources Information Center

Mitchell, Stephen M.; Jimenez, Manuel

The test for today's economy is to create a workforce development system that capitalizes on current opportunities across states, regions, and local communities. The economic environment is positive, with tight, dynamic, and global labor markets. The business need for job-ready, entry-level workers; high-skilled workers; and workers who can…

Dynamic analysis of space robot remote control system

NASA Astrophysics Data System (ADS)

Kulakov, Felix; Alferov, Gennady; Sokolov, Boris; Gorovenko, Polina; Sharlay, Artem

2018-05-01

The article presents analysis on construction of two-stage remote control for space robots. This control ensures efficiency of the robot control system at large delays in transmission of control signals from the ground control center to the local control system of the space robot. The conditions for control stability of and high transparency are found.

Small-scale spatial variation in population dynamics and fishermen response in a coastal marine fishery.

PubMed

Wilson, Jono R; Kay, Matthew C; Colgate, John; Qi, Roy; Lenihan, Hunter S

2012-01-01

A major challenge for small-scale fisheries management is high spatial variability in the demography and life history characteristics of target species. Implementation of local management actions that can reduce overfishing and maximize yields requires quantifying ecological heterogeneity at small spatial scales and is therefore limited by available resources and data. Collaborative fisheries research (CFR) is an effective means to collect essential fishery information at local scales, and to develop the social, technical, and logistical framework for fisheries management innovation. We used a CFR approach with fishing partners to collect and analyze geographically precise demographic information for grass rockfish (Sebastes rastrelliger), a sedentary, nearshore species harvested in the live fish fishery on the West Coast of the USA. Data were used to estimate geographically distinct growth rates, ages, mortality, and length frequency distributions in two environmental subregions of the Santa Barbara Channel, CA, USA. Results indicated the existence of two subpopulations; one located in the relatively cold, high productivity western Channel, and another in the relatively warm, low productivity eastern Channel. We parameterized yield per recruit models, the results of which suggested nearly twice as much yield per recruit in the high productivity subregion relative to the low productivity subregion. The spatial distribution of fishing in the two environmental subregions demonstrated a similar pattern to the yield per recruit outputs with greater landings, effort, and catch per unit effort in the high productivity subregion relative to the low productivity subregion. Understanding how spatial variability in stock dynamics translates to variability in fishery yield and distribution of effort is important to developing management plans that maximize fishing opportunities and conservation benefits at local scales.

The P1-RKDG method for two-dimensional Euler equations of gas dynamics

NASA Technical Reports Server (NTRS)

Cockburn, Bernardo; Shu, Chi-Wang

1991-01-01

A class of nonlinearly stable Runge-Kutta local projection discontinuous Galerkin (RKDG) finite element methods for conservation laws is investigated. Two dimensional Euler equations for gas dynamics are solved using P1 elements. The generalization of the local projections, which for scalar nonlinear conservation laws was designed to satisfy a local maximum principle, to systems of conservation laws such as the Euler equations of gas dynamics using local characteristic decompositions is discussed. Numerical examples include the standard regular shock reflection problem, the forward facing step problem, and the double Mach reflection problem. These preliminary numerical examples are chosen to show the capacity of the approach to obtain nonlinearly stable results comparable with the modern nonoscillatory finite difference methods.

From phase transitions to the topological renaissance. Comment on "Topodynamics of metastable brains" by Arturo Tozzi et al.

NASA Astrophysics Data System (ADS)

Somogyvári, Zoltán; Érdi, Péter

2017-07-01

The neural topodynamics theory of Tozzi et al. [13] has two main foci: metastable brain dynamics and the topological approach based on the Borsuk-Ulam theorem (BUT). Briefly, metastable brain dynamics theory hypothesizes that temporary stable synchronization and desynchronization of large number of individual dynamical systems, formed by local neural circuits, are responsible for coding of complex concepts in the brain and sudden changes of these synchronization patterns correspond to operational steps. But what dynamical network could form the substrate for this metastable dynamics, capable of entering into a combinatorially high number of metastable synchronization patterns and exhibit rapid transient changes between them? The general problem is related to the discrimination between ;Black Swans; and ;Dragon Kings;. While BSs are related to the theory of self-organized criticality, and suggests that high-impact extreme events are unpredictable, Dragon-kings are associated with the occurrence of a phase transition, whose emergent organization is based on intermittent criticality [9]. Widening the limits of predictability is one of the big open problems in the theory and practice of complex systems (Sect. 9.3 of Érdi [2]).

Dynamic Response and Failure Mechanism of Brittle Rocks Under Combined Compression-Shear Loading Experiments

NASA Astrophysics Data System (ADS)

Xu, Yuan; Dai, Feng

2018-03-01

A novel method is developed for characterizing the mechanical response and failure mechanism of brittle rocks under dynamic compression-shear loading: an inclined cylinder specimen using a modified split Hopkinson pressure bar (SHPB) system. With the specimen axis inclining to the loading direction of SHPB, a shear component can be introduced into the specimen. Both static and dynamic experiments are conducted on sandstone specimens. Given carefully pulse shaping, the dynamic equilibrium of the inclined specimens can be satisfied, and thus the quasi-static data reduction is employed. The normal and shear stress-strain relationships of specimens are subsequently established. The progressive failure process of the specimen illustrated via high-speed photographs manifests a mixed failure mode accommodating both the shear-dominated failure and the localized tensile damage. The elastic and shear moduli exhibit certain loading-path dependence under quasi-static loading but loading-path insensitivity under high loading rates. Loading rate dependence is evidently demonstrated through the failure characteristics involving fragmentation, compression and shear strength and failure surfaces based on Drucker-Prager criterion. Our proposed method is convenient and reliable to study the dynamic response and failure mechanism of rocks under combined compression-shear loading.

Reaching extended length-scales with temperature-accelerated dynamics

NASA Astrophysics Data System (ADS)

Amar, Jacques G.; Shim, Yunsic

2013-03-01

In temperature-accelerated dynamics (TAD) a high-temperature molecular dynamics (MD) simulation is used to accelerate the search for the next low-temperature activated event. While TAD has been quite successful in extending the time-scales of simulations of non-equilibrium processes, due to the fact that the computational work scales approximately as the cube of the number of atoms, until recently only simulations of relatively small systems have been carried out. Recently, we have shown that by combining spatial decomposition with our synchronous sublattice algorithm, significantly improved scaling is possible. However, in this approach the size of activated events is limited by the processor size while the dynamics is not exact. Here we discuss progress in developing an alternate approach in which high-temperature parallel MD along with localized saddle-point (LSAD) calculations, are used to carry out TAD simulations without restricting the size of activated events while keeping the dynamics ``exact'' within the context of harmonic transition-state theory. In tests of our LSAD method applied to Ag/Ag(100) annealing and Cu/Cu(100) growth simulations we find significantly improved scaling of TAD, while maintaining a negligibly small error in the energy barriers. Supported by NSF DMR-0907399.

Localization and Instability in Sheared Granular Materials: Role of Pore Fluids and Non-monotonic Rate Dependent Rheology

NASA Astrophysics Data System (ADS)

Ma, X.; Elbanna, A. E.; Kothari, K.

2017-12-01

Fault zone dynamics hold the key to resolving many outstanding geophysical problems including the heat flow paradox, discrepancy between fault static and dynamic strength, and energy partitioning. Most fault zones that generate tectonic events are gouge filled and fluid saturated posing the need for formulating gouge-specific constitutive models that capture spatially heterogeneous compaction and dilation, non-monotonic rate dependence, and transition between localized and distributed deformation. In this presentation, we focus primarily on elucidating microscopic underpinnings for shear banding and stick-slip instabilities in sheared saturated granular materials and explore their implications for earthquake dynamics. We use a non-equilibrium thermodynamics model, the Shear Transformation Zone theory, to investigate the dynamics of strain localization and its connection to stability of sliding in the presence and absence of pore fluids. We also consider the possible influence of self-induced mechanical vibrations as well as the role of external acoustic vibrations as analogue for triggering by a distant event. For the dry case, our results suggest that at low and intermediate strain rates, persistent shear bands develop only in the absence of vibrations. Vibrations tend to fluidize the granular network and de-localize slip at these rates. Stick-slip is only observed for rough grains and it is confined to the shear band. At high strain rates, stick-slip disappears and the different systems exhibit similar stress-slip response. Changing the vibration intensity, duration or time of application alters the system response and may cause long-lasting rheological changes. The presence of pore fluids modifies the stick slip pattern and may lead to both loss and development of slip instability depending on the value of the confining pressure, imposed strain rate and hydraulic parameters. We analyze these observations in terms of possible transitions between rate strengthening and rate weakening response facilitated by a competition between shear induced dilation and acoustic compaction. We discuss the implications of our results on dynamic triggering, quiescence and strength evolution in gouge filled fault zones.

Tracking fluid-borne odors in diverse and dynamic environments using multiple sensory mechanisms

NASA Astrophysics Data System (ADS)

Taylor, Brian Kyle

The ability to locate odor sources in different types of environments (i.e. diverse) and environments that change radically during the mission (i.e., dynamic) is essential. While many engineered odor tracking systems have been developed, they appear to be designed for a particular environment (e.g., strong or low flow). In field conditions, agents may encounter both. Insect olfactory orientation studies show that several animals can locate odor sources in both high and low flow environments, and environments where the wind vanishes during tracking behavior. Furthermore, animals use multi-modal sensing, including olfaction, vision and touch to localize a source. This work uses simulated and hardware environments to explore how engineered systems can maintain wind-driven tracking behavior in diverse and dynamic environments. The simulation uses olfaction, vision and tactile attributes to track and localize a source in the following environments: high flow, low flow, and transition from high to low flow (i.e., Wind Stop). The hardware platform tests two disparate tracking strategies (including the simulated strategy) in an environment that transitions from strong to low flow. Results indicate that using a remembered wind direction post wind-shutoff is a viable way to maintain wind-driven tracking behavior in a wind stop environment, which can help bridge the gap between high flow and low flow strategies. Also, multi-modal sensing with tactile attributes, vision and olfaction helps a vehicle to localize a source. In addition to engineered systems, the moth Manduca sexta is challenged to track in the following environments: Wind and Odor, Wind Stop, Odor and No Wind, No Odor and No Wind to gain a better understanding of animal behavior in these environments. Results show that contrary to previous studies of different moth species, M. sexta does not generally maintain its wind-driven tracking behavior post-wind shutoff, but instead executes a stereotyped sequence of maneuvers followed by odor-modulated undirected exploration of its environment. In the Odor and No Wind environment, animals become biased towards the area of the arena where odor is located compared to the No Odor and No Wind environment. Robot and animal results are compared to learn more about both.

LLSURE: local linear SURE-based edge-preserving image filtering.

PubMed

Qiu, Tianshuang; Wang, Aiqi; Yu, Nannan; Song, Aimin

2013-01-01

In this paper, we propose a novel approach for performing high-quality edge-preserving image filtering. Based on a local linear model and using the principle of Stein's unbiased risk estimate as an estimator for the mean squared error from the noisy image only, we derive a simple explicit image filter which can filter out noise while preserving edges and fine-scale details. Moreover, this filter has a fast and exact linear-time algorithm whose computational complexity is independent of the filtering kernel size; thus, it can be applied to real time image processing tasks. The experimental results demonstrate the effectiveness of the new filter for various computer vision applications, including noise reduction, detail smoothing and enhancement, high dynamic range compression, and flash/no-flash denoising.

Continuous-time quantum Monte Carlo calculation of multiorbital vertex asymptotics

NASA Astrophysics Data System (ADS)

Kaufmann, Josef; Gunacker, Patrik; Held, Karsten

2017-07-01

We derive the equations for calculating the high-frequency asymptotics of the local two-particle vertex function for a multiorbital impurity model. These relate the asymptotics for a general local interaction to equal-time two-particle Green's functions, which we sample using continuous-time quantum Monte Carlo simulations with a worm algorithm. As specific examples we study the single-orbital Hubbard model and the three t2 g orbitals of SrVO3 within dynamical mean-field theory (DMFT). We demonstrate how the knowledge of the high-frequency asymptotics reduces the statistical uncertainties of the vertex and further eliminates finite-box-size effects. The proposed method benefits the calculation of nonlocal susceptibilities in DMFT and diagrammatic extensions of DMFT.

Transverse ion energization and low-frequency plasma waves in the mid-altitude auroral zone - A case study

NASA Technical Reports Server (NTRS)

Peterson, W. K.; Shelley, E. G.; Boardsen, S. A.; Gurnett, D. A.; Ledley, B. G.; Sugiura, M.; Moore, T. E.

1988-01-01

Evidence of transverse ion energization at altitudes of several earth radii in the auroral zone was reexamined using several hundred hours of high-sensitivity and high-resolution plasma data obtained by the Dynamics Explorer 1 satellite. The data on particle environment encountered at midaltitudes in the auroral zone disclosed rapid variations in the values of total density, thermal structure, and composition of the plasma in the interval measured; the modes of low-frequency plasma waves also varied rapidly. It was not possible to unambiguously identify in these data particle and wave signature of local transverse ion energization; however, many intervals were found where local transverse ion heating was consistent with the observations.

An analytical Study on Dynamics of Public Procurement System and Bidding-Strategy in Local Contractor's Management

NASA Astrophysics Data System (ADS)

Ninomiya, Hitoshi; Nanerikawa, Susumu

Public procurement system such as Overall-Evaluation dynamically has been changed on local public works in Japan. However some characteristics of Bidding-Strategy and procurement system have not enough clarified. This paper attempt to analysis for a syatem dynamics and mechanisum of Overall-Evaluation by developing new simulation model focused on Bidding-Strategy, to propose some improvement scenario.

Dynamic Dilational Strengthening During Earthquakes in Saturated Gouge-Filled Fault Zones

NASA Astrophysics Data System (ADS)

Sparks, D. W.; Higby, K.

2016-12-01

The effect of fluid pressure in saturated fault zones has been cited as an important factor in the strength and slip-stability of faults. Fluid pressure controls the effective normal stress across the fault and therefore controls the faults strength. In a fault core consisting of granular fault gouge, local transient dilations and compactions occur during slip that dynamically change the fluid pressure. We use a grain-scale numerical model to investigate the effect of these fluid effects in fault gouge during an earthquake. We use a coupled finite difference-discrete element model (Goren et al, 2011), in which the pore space is filled with a fluid. Local changes in grain packing generate local deviations in fluid pressure, which can be relieved by fluid flow through the permeable gouge. Fluid pressure gradients exert drag forces on the grains that couple the grain motion and fluid flow. We simulated 39 granular gouge zones that were slowly loaded in shear stress to near the failure point, and then conducted two different simulations starting from each grain packing: one with a high enough mean permeability (> 10-11 m2) that pressure remains everywhere equilibrated ("fully drained"), and one with a lower permeability ( 10-14 m2) in which flow is not fast enough to prevent significant pressure variations from developing ("undrained"). The static strength of the fault, the size of the event and the evolution of slip velocity are not imposed, but arise naturally from the granular packing. In our particular granular model, all fully drained slip events are well-modeled by a rapid drop in the frictional resistance of the granular packing from a static value to a dynamic value that remains roughly constant during slip. Undrained events show more complex behavior. In some cases, slip occurs via a slow creep with resistance near the static value. When rapid slip events do occur, the dynamic resistance is typically larger than in drained events, and highly variable. Frictional resistance is not correlated with the mean fluid pressure in the layer, but is instead controlled by local regions undergoing dilational strengthening. We find that (in the absence of pressure-generating effects like thermal pressurization or fluid-releasing reactions), the overall effect of fluid is to strengthen the fault.

COMPARISON OF NONLINEAR DYNAMICS OPTIMIZATION METHODS FOR APS-U

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sun, Y.; Borland, Michael

Many different objectives and genetic algorithms have been proposed for storage ring nonlinear dynamics performance optimization. These optimization objectives include nonlinear chromaticities and driving/detuning terms, on-momentum and off-momentum dynamic acceptance, chromatic detuning, local momentum acceptance, variation of transverse invariant, Touschek lifetime, etc. In this paper, the effectiveness of several different optimization methods and objectives are compared for the nonlinear beam dynamics optimization of the Advanced Photon Source upgrade (APS-U) lattice. The optimized solutions from these different methods are preliminarily compared in terms of the dynamic acceptance, local momentum acceptance, chromatic detuning, and other performance measures.

Vibrational dynamics of thiocyanate and selenocyanate bound to horse heart myoglobin

DOE Office of Scientific and Technical Information (OSTI.GOV)

Maj, Michał; Oh, Younjun; Park, Kwanghee

2014-06-21

The structure and vibrational dynamics of SCN- and SeCN-bound myoglobin have been investigated using polarization-controlled IR pump-probe measurements and quantum chemistry calculations. The complexes are found to be in low and high spin states, with the dominant contribution from the latter. In addition, the Mb:SCN high spin complex exhibits a doublet feature in the thiocyanate stretch IR absorption spectra, indicating two distinct molecular conformations around the heme pocket. The binding mode of the high spin complexes was assigned to occur through the nitrogen atom, contrary to the binding through the sulfur atom that was observed in myoglobin derived from Aplysiamore » Limacina. The vibrational energy relaxation process has been found to occur substantially faster than those of free SCN{sup −} and SeCN{sup −} ions and neutral SCN- and SeCN-derivatized molecules reported previously. This supports the N-bound configurations of MbNCS and MbNCSe, because S- and Se-bound configurations are expected to have significantly long lifetimes due to the insulation effect by heavy bridge atom like S and Se in such IR probes. Nonetheless, even though their lifetimes are much shorter than those of corresponding free ions in water, the vibrational lifetimes determined for MbNCS and MbNCSe are still fairly long compared to those of azide and cyanide myoglobin systems studied before. Thus, thiocyanate and selenocyanate can be good local probes of local electrostatic environment in the heme pocket. The globin dependence on binding mode and vibrational dynamics is also discussed.« less

Dynamical History Of The Local Group In ΛCDM slowromancapii@ - Including External Perturbers In 3D

NASA Astrophysics Data System (ADS)

Banik, Indranil; Zhao, Hongsheng

2017-05-01

We attempt to fit the observed radial velocities (RVs) of ˜30 Local Group (LG) galaxies using a 3D dynamical model of it and its immediate environment within the context of the standard cosmological paradigm, Λ cold dark matter (CDM). This extends and confirms the basic results of our previous axisymmetric investigation of the LG. We find that there remains a tendency for observed RVs to exceed those predicted by our best-fitting model. The typical mismatch is slightly higher than in our 2D model, with a root mean square value of ˜50 km s-1. Our main finding is that including the 3D distribution of massive perturbing dark matter haloes is unlikely to help greatly with the high-velocity galaxy problem. None the less, the 2D and 3D results differ in several other ways such as which galaxies' RVs are most problematic and the preferred values of parameters common to both models. The anomalously high RVs of several LG dwarfs may be better explained if the Milky Way (MW) and Andromeda (M31) were once moving much faster than in our models. This would allow LG dwarfs to gain very high RVs via gravitational slingshot encounters with a massive fast-moving galaxy. Such a scenario is possible in some modified gravity theories, especially those that require the MW and M31 to have previously undergone a close flyby. In a ΛCDM context, however, this scenario is not feasible as the resulting dynamical friction would cause a rapid merger.

Structural Dynamic Behavior of Wind Turbines

NASA Technical Reports Server (NTRS)

Thresher, Robert W.; Mirandy, Louis P.; Carne, Thomas G.; Lobitz, Donald W.; James, George H. III

2009-01-01

The structural dynamicist s areas of responsibility require interaction with most other members of the wind turbine project team. These responsibilities are to predict structural loads and deflections that will occur over the lifetime of the machine, ensure favorable dynamic responses through appropriate design and operational procedures, evaluate potential design improvements for their impact on dynamic loads and stability, and correlate load and control test data with design predictions. Load prediction has been a major concern in wind turbine designs to date, and it is perhaps the single most important task faced by the structural dynamics engineer. However, even if we were able to predict all loads perfectly, this in itself would not lead to an economic system. Reduction of dynamic loads, not merely a "design to loads" policy, is required to achieve a cost-effective design. The two processes of load prediction and structural design are highly interactive: loads and deflections must be known before designers and stress analysts can perform structural sizing, which in turn influences the loads through changes in stiffness and mass. Structural design identifies "hot spots" (local areas of high stress) that would benefit most from dynamic load alleviation. Convergence of this cycle leads to a turbine structure that is neither under-designed (which may result in structural failure), nor over-designed (which will lead to excessive weight and cost).

Room-temperature ionic liquids: slow dynamics, viscosity, and the red edge effect.

PubMed

Hu, Zhonghan; Margulis, Claudio J

2007-11-01

Ionic liquids (ILs) have recently attracted significant attention from academic and industrial sources. This is because, while their vapor pressures are negligible, many of them are liquids at room temperature and can dissolve a wide range of polar and nonpolar organic and inorganic molecules. In this Account, we discuss the progress of our laboratory in understanding the dynamics, spectroscopy, and fluid dynamics of selected imidazolium-based ILs using computational and analytical tools that we have recently developed. Our results indicate that the red edge effect, the non-Newtonian behavior, and the existence of locally heterogeneous environments on a time scale relevant to chemical and photochemical reactivity are closely linked to the viscosity and highly structured character of these liquids.

Ergodicity breaking and ageing of underdamped Brownian dynamics with quenched disorder

NASA Astrophysics Data System (ADS)

Guo, Wei; Li, Yong; Song, Wen-Hua; Du, Lu-Chun

2018-03-01

The dynamics of an underdamped Brownian particle moving in one-dimensional quenched disorder under the action of an external force is investigated. Within the tailored parameter regime, the transiently anomalous diffusion and ergodicity breaking, spanning several orders of magnitude in time, have been obtained. The ageing nature of the system weakens as the dissipation of the system increases for other given parameters. Its origin is ascribed to the highly local heterogeneity of the disorder. Two kinds of approximations (in the stationary state), respectively, for large bias and large damping are derived. These results may be helpful in further understanding the nontrivial response of nonlinear dynamics, and also have potential applications to experiments and activities of biological processes.

Guess-Work and Reasonings on Centennial Evolution of Surface Air Temperature in Russia. Part III: Where is the Joint Between Norms and Hazards from a Bifurcation Analysis Viewpoint?

NASA Astrophysics Data System (ADS)

Kolokolov, Yury; Monovskaya, Anna

2016-06-01

The paper continues the application of the bifurcation analysis in the research on local climate dynamics based on processing the historically observed data on the daily average land surface air temperature. Since the analyzed data are from instrumental measurements, we are doing the experimental bifurcation analysis. In particular, we focus on the discussion where is the joint between the normal dynamics of local climate systems (norms) and situations with the potential to create damages (hazards)? We illustrate that, perhaps, the criteria for hazards (or violent and unfavorable weather factors) relate mainly to empirical considerations from human opinion, but not to the natural qualitative changes of climate dynamics. To build the bifurcation diagrams, we base on the unconventional conceptual model (HDS-model) which originates from the hysteresis regulator with double synchronization. The HDS-model is characterized by a variable structure with the competition between the amplitude quantization and the time quantization. Then the intermittency between three periodical processes is considered as the typical behavior of local climate systems instead of both chaos and quasi-periodicity in order to excuse the variety of local climate dynamics. From the known specific regularities of the HDS-model dynamics, we try to find a way to decompose the local behaviors into homogeneous units within the time sections with homogeneous dynamics. Here, we present the first results of such decomposition, where the quasi-homogeneous sections (QHS) are determined on the basis of the modified bifurcation diagrams, and the units are reconstructed within the limits connected with the problem of shape defects. Nevertheless, the proposed analysis of the local climate dynamics (QHS-analysis) allows to exhibit how the comparatively modest temperature differences between the mentioned units in an annual scale can step-by-step expand into the great temperature differences of the daily variability at a centennial scale. Then the norms and the hazards relate to the fundamentally different viewpoints, where the time sections of months and, especially, seasons distort the causal effects of natural dynamical processes. The specific circumstances to realize the qualitative changes of the local climate dynamics are summarized by the notion of a likely periodicity. That, in particular, allows to explain why 30-year averaging remains the most common rule so far, but the decadal averaging begins to substitute that rule. We believe that the QHS-analysis can be considered as the joint between the norms and the hazards from a bifurcation analysis viewpoint, where the causal effects of the local climate dynamics are projected into the customary timescale only at the last step. We believe that the results could be interesting to develop the fields connected with climatic change and risk assessment.

Functional diversity and redundancy across fish gut, sediment and water bacterial communities.

PubMed

Escalas, Arthur; Troussellier, Marc; Yuan, Tong; Bouvier, Thierry; Bouvier, Corinne; Mouchet, Maud A; Flores Hernandez, Domingo; Ramos Miranda, Julia; Zhou, Jizhong; Mouillot, David

2017-08-01

This article explores the functional diversity and redundancy in a bacterial metacommunity constituted of three habitats (sediment, water column and fish gut) in a coastal lagoon under anthropogenic pressure. Comprehensive functional gene arrays covering a wide range of ecological processes and stress resistance genes to estimate the functional potential of bacterial communities were used. Then, diversity partitioning was used to characterize functional diversity and redundancy within (α), between (β) and across (γ) habitats. It was showed that all local communities exhibit a highly diversified potential for the realization of key ecological processes and resistance to various environmental conditions, supporting the growing evidence that macro-organisms microbiomes harbour a high functional potential and are integral components of functional gene dynamics in aquatic bacterial metacommunities. Several levels of functional redundancy at different scales of the bacterial metacommunity were observed (within local communities, within habitats and at the metacommunity level). The results suggested a high potential for the realization of spatial ecological insurance within this ecosystem, that is, the functional compensation among microorganisms for the realization and maintenance of key ecological processes, within and across habitats. Finally, the role of macro-organisms as dispersal vectors of microbes and their potential influence on marine metacommunity dynamics were discussed. © 2017 Society for Applied Microbiology and John Wiley & Sons Ltd.

Large-eddy simulation of laminar-turbulent breakdown at high speeds with dynamic subgrid-scale modeling

NASA Technical Reports Server (NTRS)

El-Hady, Nabil M.

1993-01-01

The laminar-turbulent breakdown of a boundary-layer flow along a hollow cylinder at Mach 4.5 is investigated with large-eddy simulation. The subgrid scales are modeled dynamically, where the model coefficients are determined from the local resolved field. The behavior of the dynamic-model coefficients is investigated through both an a priori test with direct numerical simulation data for the same case and a complete large-eddy simulation. Both formulations proposed by Germano et al. and Lilly are used for the determination of unique coefficients for the dynamic model and their results are compared and assessed. The behavior and the energy cascade of the subgrid-scale field structure are investigated at various stages of the transition process. The investigations are able to duplicate a high-speed transition phenomenon observed in experiments and explained only recently by the direct numerical simulations of Pruett and Zang, which is the appearance of 'rope-like' waves. The nonlinear evolution and breakdown of the laminar boundary layer and the structure of the flow field during the transition process were also investigated.

Thermally triggered phononic gaps in liquids at THz scale

DOE PAGES

Bolmatov, Dima; Zhernenkov, Mikhail; Zavyalov, Dmitry; ...

2016-01-14

In this study we present inelastic X-ray scattering experiments in a diamond anvil cell and molecular dynamic simulations to investigate the behavior of phononic excitations in liquid Ar. The spectra calculated using molecular dynamics were found to be in a good agreement with the experimental data. Furthermore, we observe that, upon temperature increases, a low-frequency transverse phononic gap emerges while high-frequency propagating modes become evanescent at the THz scale. The effect of strong localization of a longitudinal phononic mode in the supercritical phase is observed for the first time. The evidence for the high-frequency transverse phononic gap due to themore » transition from an oscillatory to a ballistic dynamic regimes of motion is presented and supported by molecular dynamics simulations. This transition takes place across the Frenkel line thermodynamic limit which demarcates compressed liquid and non-compressed fluid domains on the phase diagram and is supported by calculations within the Green-Kubo phenomenological formalism. These results are crucial to advance the development of novel terahertz thermal devices, phononic lenses, mirrors, and other THz metamaterials.« less

The fundamental role of quantized vibrations in coherent light harvesting by cryptophyte algae

NASA Astrophysics Data System (ADS)

Kolli, Avinash; O'Reilly, Edward J.; Scholes, Gregory D.; Olaya-Castro, Alexandra

2012-11-01

The influence of fast vibrations on energy transfer and conversion in natural molecular aggregates is an issue of central interest. This article shows the important role of high-energy quantized vibrations and their non-equilibrium dynamics for energy transfer in photosynthetic systems with highly localized excitonic states. We consider the cryptophyte antennae protein phycoerythrin 545 and show that coupling to quantized vibrations, which are quasi-resonant with excitonic transitions is fundamental for biological function as it generates non-cascaded transport with rapid and wider spatial distribution of excitation energy. Our work also indicates that the non-equilibrium dynamics of such vibrations can manifest itself in ultrafast beating of both excitonic populations and coherences at room temperature, with time scales in agreement with those reported in experiments. Moreover, we show that mechanisms supporting coherent excitonic dynamics assist coupling to selected modes that channel energy to preferential sites in the complex. We therefore argue that, in the presence of strong coupling between electronic excitations and quantized vibrations, a concrete and important advantage of quantum coherent dynamics is precisely to tune resonances that promote fast and effective energy distribution.

Characterization and consequences of intermittent sediment oxygenation by macrofauna: interpretation of high-resolution data sets

NASA Astrophysics Data System (ADS)

Meile, C. D.; Dwyer, I.; Zhu, Q.; Polerecky, L.; Volkenborn, N.

2017-12-01

Mineralization of organic matter in marine sediments leads to the depletion of oxygen, while activities of infauna introduce oxygenated seawater to the subsurface. In permeable sediments solutes can be transported from animals and their burrows into the surrounding sediment through advection over several centimeters. The intermittency of pumping leads to a spatially heterogeneous distribution of oxidants, with the temporal dynamics depending on sediment reactivity and activity patterns of the macrofauna. Here, we present results from a series of experiments in which these dynamics are studied at high spatial and temporal resolution using planar optodes. From O2, pH and pCO2 optode data, we quantify rates of O2 consumption and dissolved inorganic carbon production, as well alkalinity dynamics, with millimeter-scale resolution. Simulating intermittent irrigation by imposed pumping patterns in thin aquaria, we derive porewater flow patterns, which together with the production and consumption rates cause the chemical distributions and the establishment of reaction fronts. Our analysis thus establishes a quantitative connection between the locally dynamic redox conditions relevant for biogeochemical transformations and macroscopic observations commonly made with sediment cores.

Pressure-induced emergence of unusually high-frequency transverse excitations in a liquid alkali metal: Evidence of two types of collective excitations contributing to the transverse dynamics at high pressures

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bryk, Taras; Lviv Polytechnic National University, 12 S. Bandera Street, UA-79013 Lviv; Ruocco, G.

Unlike phonons in crystals, the collective excitations in liquids cannot be treated as propagation of harmonic displacements of atoms around stable local energy minima. The viscoelasticity of liquids, reflected in transition from the adiabatic to elastic high-frequency speed of sound and in absence of the long-wavelength transverse excitations, results in dispersions of longitudinal (L) and transverse (T) collective excitations essentially different from the typical phonon ones. Practically, nothing is known about the effect of high pressure on the dispersion of collective excitations in liquids, which causes strong changes in liquid structure. Here dispersions of L and T collective excitations inmore » liquid Li in the range of pressures up to 186 GPa were studied by ab initio simulations. Two methodologies for dispersion calculations were used: direct estimation from the peak positions of the L/T current spectral functions and simulation-based calculations of wavenumber-dependent collective eigenmodes. It is found that at ambient pressure, the longitudinal and transverse dynamics are well separated, while at high pressures, the transverse current spectral functions, density of vibrational states, and dispersions of collective excitations yield evidence of two types of propagating modes that contribute strongly to transverse dynamics. Emergence of the unusually high-frequency transverse modes gives evidence of the breakdown of a regular viscoelastic theory of transverse dynamics, which is based on coupling of a single transverse propagating mode with shear relaxation. The explanation of the observed high-frequency shift above the viscoelastic value is given by the presence of another branch of collective excitations. With the pressure increasing, coupling between the two types of collective excitations is rationalized within a proposed extended viscoelastic model of transverse dynamics.« less

Spatial and Temporal Variation in Aedes aegypti and Aedes albopictus (Diptera: Culicidae) Numbers in the Yogyakarta Area of Java, Indonesia, With Implications for Wolbachia Releases.

PubMed

Tantowijoyo, W; Arguni, E; Johnson, P; Budiwati, N; Nurhayati, P I; Fitriana, I; Wardana, S; Ardiansyah, H; Turley, A P; Ryan, P; O'Neill, S L; Hoffmann, A A

2016-01-01

of mosquito vector populations, particularly through Wolbachia endosymbionts. The success of these strategies depends on understanding the dynamics of vector populations. In preparation for Wolbachia releases around Yogyakarta, we have studied Aedes populations in five hamlets. Adult monitoring with BioGent- Sentinel (BG-S) traps indicated that hamlet populations had different dynamics across the year; while there was an increase in Aedes aegypti (L.) and Aedes albopictus (Skuse) numbers in the wet season, species abundance remained relatively stable in some hamlets but changed markedly (>2 fold) in others. Local rainfall a month prior to monitoring partly predicted numbers of Ae. aegypti but not Ae. albopictus. Site differences in population size indicated by BG-S traps were also evident in ovitrap data. Egg or larval collections with ovitraps repeated at the same location suggested spatial autocorrelation (<250 m) in the areas of the hamlets where Ae. aegypti numbers were high. Overall, there was a weak negative association (r<0.43) between Ae. aegypti and Ae. albopictus numbers in ovitraps when averaged across collections. Ae. albopictus numbers in ovitraps and BG-S traps were positively correlated with vegetation around areas where traps were placed, while Ae. aegypti were negatively correlated with this feature. These data inform intervention strategies by defining periods when mosquito densities are high, highlighting the importance of local site characteristics on populations, and suggesting relatively weak interactions between Ae. aegypti and Ae. albopictus. They also indicate local areas within hamlets where consistently high mosquito densities may influence Wolbachia invasions and other interventions.

Subtidal circulation on the Alabama shelf during the Deepwater Horizon oil spill

NASA Astrophysics Data System (ADS)

Dzwonkowski, Brian; Park, Kyeong

2012-03-01

Water column velocity and hydrographic measurements on the inner Alabama shelf are used to examine the flow field and its forcing dynamics during the Deepwater Horizon oil spill disaster in the spring and summer of 2010. Comparison between two sites provides insight into the flow variability and dynamics of a shallow, highly stratified shelf in the presence of complicating geographic and bathymetric features. Seasonal currents reveal a convergent flow with strong, highly sheared offshore flow near a submarine bank just outside of Mobile Bay. At synoptic time scales, the flow is relatively consistent with typical characteristics of wind-driven Ekman coastal circulation. Analysis of the depth-averaged along-shelf momentum balance indicates that both bottom stress and along-shelf pressure gradient act to counter wind stress. As a consequence of the along-shelf pressure gradient and thermal wind shear, flow reversals in the bottom currents can occur during periods of transitional winds. Despite the relatively short distance between the two sites (14 km), significant spatial variability is observed. This spatial variability is argued to be a result of local variations in the bathymetry and density field as the study region encompasses a submarine bank near the mouth of a major freshwater source. Given the physical parameters of the system, along-shelf flow in this region would be expected to separate from the local isobaths, generating a mean offshore flow. The local, highly variable density field is expected to be, in part, responsible for the differences in the vertical variability in the current profiles.

A high-speed fiber optic data bus for local data communications

NASA Astrophysics Data System (ADS)

Porter, D. R.; Couch, P. R.; Schelin, J. W.

1983-04-01

A 100 Mbit/s fiber optic data bus is described which is capable of inter-connecting up to 16 terminals by means of a passive optical star coupler for terminal separation distance of up to 2 km. The system shows substantial performance margins and a BER of less than 10 to the -10th. Descriptions are also given of techniques for rapid laser stabilization, clock recovery, and the detection of bursty data over a wide dynamic range. The dynamic time slot allocations (DTSA) access protocol, which makes efficient use of the data bus under heavy bus loading conditions, is defined.

Toward a generalized theory of epidemic awareness in social networks

NASA Astrophysics Data System (ADS)

Wu, Qingchu; Zhu, Wenfang

We discuss the dynamics of a susceptible-infected-susceptible (SIS) model with local awareness in networks. Individual awareness to the infectious disease is characterized by a general function of epidemic information in its neighborhood. We build a high-accuracy approximate equation governing the spreading dynamics and derive an approximate epidemic threshold above which the epidemic spreads over the whole network. Our results extend the previous work and show that the epidemic threshold is dependent on the awareness function in terms of one infectious neighbor. Interestingly, when a pow-law awareness function is chosen, the epidemic threshold can emerge in infinite networks.

Trion formation dynamics in monolayer transition metal dichalcogenides

DOE PAGES

Singh, Akashay; Moody, Galan; Schaibley, John R.; ...

2016-01-05

Here, we report charged exciton (trion) formation dynamics in doped monolayer transition metal dichalcogenides, specifically molybdenum diselenide (MoSe 2), using resonant two-color pump-probe spectroscopy. When resonantly pumping the exciton transition, trions are generated on a picosecond time scale through exciton-electron interaction. As the pump energy is tuned from the high energy to low energy side of the inhomogeneously broadened exciton resonance, the trion formation time increases by ~50%. This feature can be explained by the existence of both localized and delocalized excitons in a disordered potential and suggests the existence of an exciton mobility edge in transition metal dichalcogenides.

Physical nature of strain rate sensitivity of metals and alloys at high strain rates

NASA Astrophysics Data System (ADS)

Borodin, E. N.; Gruzdkov, A. A.; Mayer, A. E.; Selyutina, N. S.

2018-04-01

The role of instabilities of plastic flow at plastic deformation of various materials is one of the important cross-disciplinary problems which is equally important in physics, mechanics and material science. The strain rate sensitivities under slow and high strain rate conditions of loading have different physical nature. In the case of low strain rate, the sensitivity arising from the inertness of the defect structures evolution can be expressed by a single parameter characterizing the plasticity mechanism. In our approach, this is the value of the characteristic relaxation time. In the dynamic case, there are additional effects of “high-speed sensitivity” associated with the micro-localization of the plastic flow near the stress concentrators. In the frames of mechanical description, this requires to introduce additional strain rate sensitivity parameters, which is realized in numerous modifications of Johnson–Cook and Zerilli–Armstrong models. The consideration of both these factors is fundamental for an adequate description of the problems of dynamic deformation of highly inhomogeneous metallic materials such as steels and alloys. The measurement of the dispersion of particle velocities on the free surface of a shock-loaded material can be regarded as an experimental expression of the effect of micro-localization. This is also confirmed by our results of numerical simulation of the propagation of shock waves in a two-dimensional formulation and analytical estimations.

High Latitude Dust Sources, Transport Pathways and Impacts

NASA Astrophysics Data System (ADS)

Bullard, J. E.; Baddock, M. C.; Darlington, E.; Mockford, T.; Van-Soest, M.

2017-12-01

Estimates from field studies, remote sensing and modelling all suggest around 5% of global dust emissions originate in the high latitudes (≥50°N and ≥40°S), a similar proportion to that from the USA (excluding Alaska) or Australia. This paper identifies contemporary sources of dust within the high latitudes and their role within local, regional and hemispherical environmental systems. Field data and remote sensing analyses are used to identify the environmental and climatic conditions that characterize high latitude dust sources in both hemispheres. Examples from Arctic and sub-Arctic dust sources are used to demonstrate and explain the different regional relationships among dust emissions, glacio-fluvial dynamics and snow cover. The relative timing of dust input to high latitude terrestrial, cryospheric and marine systems determines its short to medium term environmental impact. This is highlighted through quantifying the importance of locally-redistributed dust as a nutrient input to high latitude soils and lakes in West Greenland.

Glutamate and GABA receptors and transporters in the basal ganglia: What does their subsynaptic localization reveal about their function?

PubMed Central

Galvan, Adriana; Kuwajima, Masaaki; Smith, Yoland

2006-01-01

GABA and glutamate, the main transmitters in the basal ganglia, exert their effects through ionotropic and metabotropic receptors. The dynamic activation of these receptors in response to released neurotransmitter depends, among other factors, on their precise localization in relation to corresponding synapses. The use of high resolution quantitative electron microscope immunocytochemical techniques has provided in-depth description of the subcellular and subsynaptic localization of these receptors in the CNS. In this article, we review recent findings on the ultrastructural localization of GABA and glutamate receptors and transporters in the basal ganglia, at synaptic, extrasynaptic and presynaptic sites. The anatomical evidence supports numerous potential locations for receptor-neurotransmitter interactions, and raises important questions regarding mechanisms of activation and function of synaptic versus extrasynaptic receptors in the basal ganglia. PMID:17059868

Shot-noise evidence of fractional quasiparticle creation in a local fractional quantum Hall state.

PubMed

Hashisaka, Masayuki; Ota, Tomoaki; Muraki, Koji; Fujisawa, Toshimasa

2015-02-06

We experimentally identify fractional quasiparticle creation in a tunneling process through a local fractional quantum Hall (FQH) state. The local FQH state is prepared in a low-density region near a quantum point contact in an integer quantum Hall (IQH) system. Shot-noise measurements reveal a clear transition from elementary-charge tunneling at low bias to fractional-charge tunneling at high bias. The fractional shot noise is proportional to T(1)(1-T(1)) over a wide range of T(1), where T(1) is the transmission probability of the IQH edge channel. This binomial distribution indicates that fractional quasiparticles emerge from the IQH state to be transmitted through the local FQH state. The study of this tunneling process enables us to elucidate the dynamics of Laughlin quasiparticles in FQH systems.

Inferring Biological Structures from Super-Resolution Single Molecule Images Using Generative Models

PubMed Central

Maji, Suvrajit; Bruchez, Marcel P.

2012-01-01

Localization-based super resolution imaging is presently limited by sampling requirements for dynamic measurements of biological structures. Generating an image requires serial acquisition of individual molecular positions at sufficient density to define a biological structure, increasing the acquisition time. Efficient analysis of biological structures from sparse localization data could substantially improve the dynamic imaging capabilities of these methods. Using a feature extraction technique called the Hough Transform simple biological structures are identified from both simulated and real localization data. We demonstrate that these generative models can efficiently infer biological structures in the data from far fewer localizations than are required for complete spatial sampling. Analysis at partial data densities revealed efficient recovery of clathrin vesicle size distributions and microtubule orientation angles with as little as 10% of the localization data. This approach significantly increases the temporal resolution for dynamic imaging and provides quantitatively useful biological information. PMID:22629348