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48 results for “dynamic force”
Data from: Muscle force-length dynamics during walking over obstacles indicates delayed recovery and a shift towards more strut-like function in birds with proprioceptive deficit
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Dynamical forces drive cell and organ morphology changes during embryonic development
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Data from: Tuning of feedforward control enables stable muscle force-length dynamics after loss of autogenic proprioceptive feedback
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Pleistocene dynamics of the Eurasian steppe as a driving force of evolution: Phylogenetic history of the genus Capsella (Brassicaceae)
<p><i>Capsella</i> is a model plant genus of the Brassicaceae, closely related to <i>Arabidopsis</i>. To disentangle its biogeographical history and intrageneric phylogenetic relationships, 282 individuals of all five currently recognised <i>Capsella</i> species were genotyped, using a restriction digest-based next generation sequencing method. Our analysis retrieved two main lineages within <i>Capsella</i> that split <i>c.</i> one million years ago, with western <i>C. grandiflora</i> and <i>C. rubella</i> forming a sister lineage to the eastern clade consisting of <i>C. orientalis</i>. The split was attributed to continuous latitudinal displacements of the Eurasian steppe belt to the south during early Pleistocene glacial cycles. During the interglacial cycles of the Late Pleistocene, hybridisation of the two lineages took place in the southwestern East European Plain, leading to the allotetraploid <i>C. bursa-pastoris</i>. Extant genetic variation within <i>Capsella orientalis</i> postdated any extensive glacial events. Ecological niche modelling showed that suitable habitat for <i>C. orientalis</i> existed during the Last Glacial Maximum around the north coast of the Black Sea and in southern Kazakhstan. Such a scenario is also supported by population genomic data that uncovered the highest genetic diversity in the south Kazakhstan cluster, suggesting that <i>C. orientalis</i> originated in continental Asia and migrated north- and possibly eastwards after the last ice age. Post-glacial hybridisation events between <i>C. bursa-pastoris</i> and <i>C. grandiflora/rubella</i> in the southwestern East European Plain and the Mediterranean gave rise to <i>C. thracica</i>. Introgression of <i>C. grandiflora</i>/<i>rubella</i> into <i>C. bursa-pastoris</i> resulted in a new Mediterranean cluster within the already existing Eurasian <i>C. bursa-pastoris</i> cluster. This study shows that the continuous displacement and disruption of the Eurasian steppe belt during the Pleistocene was the driving force in the evolution of <i>Capsella</i>.</p>
Code and data for results and figures of the manuscript "Multi-million year cycles in modelled δ13C as a response to astronomical forcing of organic matter fluxes." submitted to Earth System Dynamics
<p>This dataset contains the code of the model used in the manuscript submitted to Earth System Dynamics "Multi-million year cycles in modelled δ13C as a response to astronomical forcing of organic matter fluxes.". It also contains some model outputs and code to draw the figures.</p>
Molecular dynamics simulations of lipid bilayers containing POPC and POPS with the lipid17 force field, NaCl and KCl salt concentrations
<p>Classical molecular dynamics simulations of various mixtures of POPC:POPS lipid bilayers in water solution at various NaCl, KCl and CaCl2 concentrations, with Na+ counterions (and K+ counterions when noted with "_KCl" suffix).</p> <p>Lipid17 force field parameters used for lipids, TIP3p water model and Dang ions.</p> <p>The file names report the number of additional cations.</p> <p>simulations performed with Gromacs 2018.0 (*.xtc files)</p> <p>simulation length 1000 ns = 1 microsecond</p> <p>temperature 298 K</p> <p>Gromacs simulation setting is in the file npt_lipid_bilayer.mdp</p>
Molecular dynamics simulations of lipid bilayers containing POPC and POPS with the lipid17 force field and ff99 ions
<p>Classical molecular dynamics simulations of various mixtures of POPC:POPS lipid bilayers in water solution at various NaCl, KCl and CaCl2 concentrations, with Na+ counterions (and K+ counterions when noted with "_KCl" suffix).</p> <p>Lipid17 force field parameters used for lipids, TIP3p water model and ff99 ions.</p> <p>The file names report the number of additional cations.</p> <p>simulations performed with Gromacs 2018.0 (*.xtc files)</p> <p>simulation length 1000 ns = 1 microsecond</p> <p>temperature 298 K</p> <p>Gromacs simulation setting is in the file npt_lipid_bilayer.mdp</p>
Molecular dynamics simulations of lipid bilayers containing POPC and POPS with the lipid17 force field, only counterions, and CaCl2 concentrations
<p>Classical molecular dynamics simulations of various mixtures of POPC:POPS lipid bilayers in water solution at various NaCl, KCl and CaCl2 concentrations, with Na+ counterions (and K+ counterions when noted with "_KCl" suffix).</p> <p>Lipid17 force field parameters used for lipids, TIP3p water model and Dang ions.</p> <p>The file names report the number of additional cations.</p> <p>simulations performed with Gromacs 2018.0 (*.xtc files)</p> <p>simulation length 1000 ns = 1 microsecond</p> <p>temperature 298 K</p> <p>Gromacs simulation setting is in the file npt_lipid_bilayer.mdp</p>
Molecular dynamics simulations of lipid bilayers containing POPC and POPS (various mixtures) with ECC-lipids force field, and Na+ (K+) counterions
<p>Classical molecular dynamics simulations of various mixtures of POPC:POPS lipid bilayers in water solution with only Na+ counterions (or with K+ counterions when noted with "_KCl" suffix).</p> <p>ECC-lipids force field parameters used for lipids, SPC/E water model and ECC-ions, all parameters available at <a href="https://github.com/jmelcr/ecc_lipids">https://github.com/jmelcr/ecc_lipids</a></p> <p>simulations performed with Gromacs 2018.0 (*.xtc files)</p> <p>simulation length 1000 ns = 1 microsecond</p> <p>temperature 298 K</p> <p>Gromacs simulation setting is in the file npt_lipid_bilayer.mdp</p>
Molecular dynamics simulations of lipid bilayers containing POPC and POPS (5:1) with ECC-lipids force field, and Na+ (K+) counterions at various CaCl2 additional concentrations
<p>Classical molecular dynamics simulations of various mixtures of POPC:POPS lipid bilayers in water solution with Na+ counterions (or with K+ counterions when noted with "_KCl" suffix) and an additional concentration of CaCl2.</p> <p>The numbers in the file names denote the number of additional Ca2+ cations.</p> <p>ECC-lipids force field parameters used for lipids, SPC/E water model and ECC-ions, all parameters available at <a href="https://github.com/jmelcr/ecc_lipids">https://github.com/jmelcr/ecc_lipids</a></p> <p>simulations performed with Gromacs 2018.0 (*.xtc files)</p> <p>simulation length 1000 ns = 1 microsecond</p> <p>temperature 298 K</p> <p>Simulations without additional salts are at a <a href="https://doi.org/10.5281/zenodo.1488094">separate deposit: 10.5281/zenodo.1488094</a>.</p>
Molecular dynamics simulations of lipid bilayers containing POPC and POPS (5:1) with ECC-lipids force field, and Na+ (K+) counterions at various additional concentrations of NaCl and KCl
<p>Classical molecular dynamics simulations of various mixtures of POPC:POPS lipid bilayers in water solution with Na+ counterions (or with K+ counterions when noted with "_KCl" suffix) and an additional concentration of NaCl or KCl.</p> <p>The numbers in the file names denote the number of additional cations.</p> <p>ECC-lipids force field parameters used for lipids, SPC/E water model and ECC-ions, all parameters are included in this repository in GROMACS format and are also available at <a href="https://github.com/jmelcr/ecc_lipids">https://github.com/jmelcr/ecc_lipids</a></p> <p>simulations performed with Gromacs 2018.0 (*.xtc files)</p> <p>simulation length 1000 ns = 1 microsecond</p> <p>temperature 298 K</p> <p>Simulations without additional salts are at a <a href="https://doi.org/10.5281/zenodo.1488094">separate deposit: 10.5281/zenodo.1488094</a>.</p>
Pendellösung Interferometry Probes the Neutron Charge Radius, Lattice Dynamics, and Fifth Forces
<p>Data from manuscript entitled: "Pendellosung Interferometry Probes the Neutron Charge Radius, Lattice Dynamics, and Fifth Forces" arXiv:2103.05428</p> <p> </p>
Pleistocene dynamics of the Eurasian steppe as a driving force of evolution: Phylogenetic history of the genus Capsella (Brassicaceae)
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Complementary data to "Molecular dynamics trajectories for 630 drug-membrane potentials of mean force"
<p>Missing data from "Molecular dynamics trajectories for 630 drug-membrane potentials of mean force"</p> <p>Hoffmann, Christian; Centi, Alessia; Menichetti, Roberto; Bereau, Tristan (2020): Molecular dynamics trajectories for 630 drug-membrane potentials of mean force. figshare. Collection.</p> <p>https://doi.org/10.6084/m9.figshare.c.4641551.v1</p> <p>Includes:</p> <ul> <li>'bsResult.xvg' of DIM_P2-P3 in DLPC</li> </ul>
Data from: Does dynamic stability govern propulsive force generation in human walking?
Before succumbing to slower speeds, older adults may walk with a diminished push-off to prioritize stability over mobility. However, direct evidence for trade-offs between push-off intensity and balance control in human walking, independent of changes in speed, has remained elusive. As a critical first step, we conducted two experiments to investigate: (i) the independent effects of walking speed and propulsive force (FP) generation on dynamic stability in young adults, and (ii) the extent to which young adults prioritize dynamic stability in selecting their preferred combination of walking speed and FP generation. Subjects walked on a force-measuring treadmill across a range of speeds as well as at constant speeds while modulating their FP according to a visual biofeedback paradigm based on real-time force measurements. In contrast to improvements when walking slower, walking with a diminished push-off worsened dynamic stability by up to 32%. Rather, we find that young adults adopt an FP at their preferred walking speed that maximizes dynamic stability. One implication of these findings is that the onset of a diminished push-off in old age may independently contribute to poorer balance control and precipitate slower walking speeds.
Data from: Dispersal promotes compensatory dynamics and stability in forced metacommunities
Understanding the factors that govern the stability of populations and communities has gained increasing importance as habitat fragmentation and environmental perturbations continue to escalate due to human activities. Dispersal is commonly viewed as essential to the maintenance of diversity in spatially subdivided communities, but few experiments have explored how dispersal interacts with the spatiotemporal components of environmental perturbations to determine community-level stability. We examined these processes using an experimental planktonic system composed of three competing species of zooplankton. We subjected zooplankton metacommunities to varying levels of dispersal and pH perturbations that varied in their degree of spatial synchrony. We show that dispersal can reverse the destabilizing effects of environmental forcing when perturbations are spatially asynchronous. Asynchrony in pH perturbations generated spatially and temporally varying species refugia that promoted source-sink dynamics and allowed prolonged persistence of zooplankton species that were otherwise extirpated in synchronously varying metacommunities. This, in turn, increased local species diversity, promoted compensatory population dynamics and enhanced local community-level stability. Our results indicate that patterns of spatial covariation in environmental variability are critical to predicting the effects of dispersal on the dynamics and persistence of communities.
Data from: Force and torque on spherical particles in micro-channel flows using computational fluid dynamics
To delineate the influence of hemodynamic force on cell adhesion processes, model in vitro fluidic assays that mimic physiological conditions are commonly employed. Herein, we offer a framework for solution of the three-dimensional Navier–Stokes equations using computational fluid dynamics (CFD) to estimate the forces resulting from fluid flow near a plane acting on a sphere that is either stationary or in free flow, and we compare these results to a widely used theoretical model that assumes Stokes flow with a constant shear rate. We find that while the full three-dimensional solutions using a parabolic velocity profile in CFD simulations yield similar translational velocities to those predicted by the theoretical method, the CFD approach results in approximately 50% larger rotational velocities over the wall shear stress range of 0.1–5.0 dynes cm−2. This leads to an approximately 25% difference in force and torque calculations between the two methods. When compared with experimental measurements of translational and rotational velocities of microspheres or cells perfused in microfluidic channels, the CFD simulations yield significantly less error. We propose that CFD modelling can provide better estimations of hemodynamic force levels acting on perfused microspheres and cells in flow fields through microfluidic devices used for cell adhesion dynamics analysis.
"Methodological and force field effects in the molecular dynamics-based prediction of binding free energies of host-guest systems"
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Kelvin Probe Force Microscopy under Variable Illumination: A Novel Technique To Unveil Charge Carrier Dynamics in GaN
<p>SPV curve in logarithmic scale; XPS results before heating, after heating, and after sputtering; SPV after days in darkness; and AFM and CPD maps (before and after heating) of larger areas with higher spatial resolution than the ones presented here (<a href="https://pubs.acs.org/doi/suppl/10.1021/acs.jpcc.3c01887/suppl_file/jp3c01887_si_001.pdf">PDF</a>)</p>
Data from: Force and torque on spherical particles in micro-channel flows using computational fluid dynamics
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.